Cloning and expression analysis of piRNA-like RNAs: adult testis–specific small RNAs in chicken
Hui Yang,a Xiaobo Wang,a Xiaojuan Liu,a Xiaofang Liu,a Lingxiao Li,a Xiaoxiang Hu,a Ning Lia*
a State Key Laboratory for Agrobiotechnology, College of Biological Science, China Agricultural University, Beijing 100094, P R China.
*Corresponding author: Fax: +86 10 6273 3904
Telephone number: +86 10 6273 3323
E-mail:
Online resource
Table 1. Northern blot probes used in this study
Name / Pil-RNA Sequence / ProbePil-RNA-1 / GAGGUAUCUUUAGGCCUGUGGUGGC / GCCACCACAGGCCTAAAGATACCTC
Pil-RNA-2 / AUGAUCAAAGGGCUAUGGAGGUAG / CTACCTCCATAGCCCTTTGATCAT
Pil-RNA-3 / GCUGACGAUGGUGUCAGUGAGCC / GGCTCACTGACACCATCGTCAGC
Pil-RNA-4 / AGUUGGACCUACAGAGCAGUCUGGGAG / CTCCCAGACTGCTCTGTAGGTCCAACT
Pil-RNA-5 / CCCUUCGUGAAACUAGCAGAAACUCGUGC / GCACGAGTTTCTGCTAGTTTCACGAAGGG
Pil-RNA-6 / UACCGAGAACUUGCCAUGCAGGUGC / GCACCTGCATGGCAAGTTCTCGGTA
Pil-RNA-7 / UGGCACGAAGCUGUGGCACGUUUUUCCAAGA / TCTTGGAAAAACGTGCCACAGCTTCGTGCCA
Pil-RNA-8 / AGCAAAUGCGAGCAGCGGUGAGC / GCTCACCGCTGCTCGCATTTGCT
Pil-RNA-9 / UUGGAGGAUGAGGCCUGGACCAAG / CTTGGTCCAGGCCTCATCCTCCAA
5s rRNA / GCCUACGGCC AUCCCACCCU
GGUAACGCCC GAUCUCGUCU
GAUCUCGGAA GCUAAGCAGG
GUCGGGCCUG GUUAGUACUU
GGAUGGGAGA CCUCCUGGGA
AUACCGGGUG CUGUAGGCUU / AAGCCTACAGCACCCGGTATTCCCAGG
Table 2. PCR primers used in this study
Name / Sequence(5’-3’)smRNA-RP / CGAATTCTAGAGCTCGAGGCAGG
pil-RNA-1 / GAGGTATCTTTAGGCCTGTGGTGGC
pil-RNA-2 / ATGATCAAAGGGCTATGGAGGTAG
pil-RNA-3 / GCTGACGATGGTGTCAGTGAGCC
pil-RNA-4 / AGTTGGACCTACAGAGCAGTCTGGGAG
pil-RNA-5 / CCCTTCGTGAAACTAGCAGAAACTCGTGC
pil-RNA-6 / TACCGAGAACTTGCCATGCAGGTGC
pil-RNA-7 / TGGCACGAAGCTGTGGCACGTTTTTCCAAGA
pil-RNA-8 / AGCAAATGCGAGCAGCGGTGAGC
pil-RNA-9 / TTGGAGGATGAGGCCTGGACCAAG
5S rRNA / GCCTACGGCCATCCCACCCT
Table 3Cloned pil-RNA sequence
Name / length / Sequence / Copy No. / Genomic distribution / Chromosome / Strand / SiteA1-1 / 26 / TGTGCGTTTCAGTGTTTTTCTGGATG / 1 / intergene / 1 / ﹣ / 86668164 / 86668189
B2-5 / 24 / ACACTTGATGATTCTTCTTAAGTG / 1 / intergene / 20 / ﹢ / 4309941 / 4309964
AA1-14 / 27 / TTACTGGAAGGGTTGTTTTCTATTTTA / 1 / intergene / 1 / ﹢ / 64639206 / 64639232
AA1-24 / 27 / GAGAGAAGAACATTCTTTGAACTGCGG / 9 / intergene / 1 / ﹣ / 176267852 / 176267878
1 / ﹣ / 126865149 / 126865175
1 / ﹣ / 114970135 / 114970161
1 / ﹣ / 114973970 / 114973996
z / ﹢ / 66359761 / 66359787
un / ﹢ / 46922183 / 46922209
1 / ﹢ / 120932199 / 120932225
1 / ﹢ / 117522832 / 117522858
1 / ﹢ / 117524944 / 117524970
AA1-27 / 27 / TGTGCCAAGAGAGGCTCCTCAGGCTTA / 2 / intergene / 2 / ﹢ / 35732228 / 35732254
2 / ﹢ / 35756433 / 35756459
AA1-28 / 20 / TGAAGTGTGAAGTGGCGCAA / 4 / intergene / un / ﹣ / 27115661 / 27115680
un / ﹣ / 27151888 / 27151907
20 / ﹣ / 5454899 / 5454918
un / ﹢ / 53724555 / 53724574
AA1-30 / 28 / ACCGGATATAAAATCAATGCTATCCCGG / 2 / intergene / 9 / ﹣ / 8829852 / 8829879
9 / ﹢ / 7958646 / 7958673
B1-20 / 22 / TCCTTTATGCTTGGTAAGAGGA / 1 / intergene / 12 / ﹢ / 1578756 / 1578777
BB1-4 / 23 / TGTTCACTGTCACGGTGGACTGT / 1 / intergene / 2 / ﹣ / 83121571 / 83121593
BB1-24 / 20 / GGAGCACAGCTGCTGTGTCC / 7 / contig / un / ﹣ / 47909984 / 47910003
un / ﹣ / 45602229 / 45602248
un / ﹣ / 45605243 / 45605262
un / ﹣ / 22641070 / 22641089
un / ﹣ / 5527364 / 5527383
un / ﹢ / 46256236 / 46256255
un / ﹢ / 46266501 / 46266520
BB1-27 / 23 / TCCCACATGGTCTAGCGGTTAGG / 3 / intergene / 20 / ﹣ / 2511198 / 2511220
20 / ﹢ / 992599 / 992621
2 / ﹢ / 131381903 / 131381925
CC1-13 / 26 / TCCCAAGGGACACAAAGTCCTTTGTG / 1 / repeat / z / ﹣ / 65333180 / 65333205
A1-8 / 26 / GCAGGATTTCTTTCCAAAAGTCTGGC / 10 / intergene / 1 / ﹣ / 119501888 / 119501913
1 / ﹢ / 127978514 / 127978539
1 / ﹢ / 127980739 / 127980764
1 / ﹢ / 128005097 / 128005122
1 / ﹢ / 120923046 / 120923071
1 / ﹢ / 120945198 / 120945223
1 / ﹢ / 119089421 / 119089446
1 / ﹢ / 119335242 / 119335267
1 / ﹢ / 117518574 / 117518599
1 / ﹢ / 117558207 / 117558232
A1-10 / 26 / CAGAGTGGCCGAGTTGGCTGTCTTTG / 6 / repeat / un / ﹣ / 136283 / 136308
5 / ﹣ / 59301537 / 59301562
5 / ﹣ / 59307118 / 59307143
5 / ﹣ / 59392005 / 59392030
5 / ﹣ / 59396109 / 59396134
5 / ﹣ / 59407356 / 59407381
A1-11 / 28 / TCCGTCTCAGGCACGCTCGGCAATTCGC / 1 / intergene / 1 / ﹢ / 2644784 / 2644811
A1-21 / 26 / GGACACAGTTTTCAAGATGTGCCCC / 1 / repeat / z / ﹣ / 72202502 / 72202526
A1-26 / 22 / TTTGCAAGGAACTGGAAGGAC / 6 / contig / un / ﹣ / 47909392 / 47909412
un / ﹣ / 45601637 / 45601657
un / ﹣ / 22640468 / 22640488
un / ﹣ / 5526762 / 5526782
un / ﹢ / 47889161 / 47889181
un / ﹢ / 46256827 / 46256847
A1-62 / 28 / TAACAGCCATGAGTTTTCAAATATGCTG / 2 / repeat / 1 / ﹢ / 80868490 / 80868517
1 / ﹢ / 78712246 / 78712724
A1-64 / 24 / GGTTCCAGTATCAATCCTGAGGGA / 2 / contig / un / ﹣ / 56416063 / 56416087
un / ﹣ / 50472067 / 50472091
A1-65 / 26 / GTGGTGCAGCCTACTCGTACTTTGGG / 1 / intergene / 2 / ﹢ / 55451632 / 55451657
A1-73 / 27 / TCCCTGTGGTCTAGTGGTTAGGATTCG / 5 / intergene / un / ﹣ / 4825361 / 4825388
20 / ﹣ / 9515864 / 9515891
2 / ﹣ / 127862862 / 127862889
16 / ﹢ / 141433 / 141460
16 / ﹢ / 145157 / 145184
A1-80 / 26 / AGTGACTTTCTACGTGGTTTGATAGG / 2 / repeat / 1 / ﹣ / 1728498 / 1728523
1 / ﹢ / 4011409 / 4011434
B1-10 / 22 / TGGTCTTGCGGCTACTGGACGC / 3 / intergene / 4 / ﹣ / 45497710 / 45497731
4 / ﹣ / 45504695 / 45504716
un / ﹢ / 3331905 / 3331926
B1-42 / 25 / GCTGGCAAGGGACATTCCCACCAGA / 1 / contig / E22C19W28_E50C23 / ﹣ / 163532 / 163556
B1-56 / 24 / AACGGTGACAGGCTGTGCCTTCGG / 1 / intergene / z / ﹢ / 69142208 / 69142231
B1-76 / 25 / TCCACCGTCCTCTGGGGCAGTGAGA / 4 / intergene / 5 / ﹢ / 59302242 / 59302266
5 / ﹢ / 59396818 / 59396842
5 / ﹢ / 59409270 / 59409294
5 / ﹢ / 59465630 / 59465654
B1-77 / 21 / GACAACAGTGGTTGGTGTTGT / 1 / intergene / 1 / ﹣ / 93052272 / 93052292
B1-79 / 24 / TCTAGCAAAGACTAGCGGAGAAGC / 9 / contig / un / ﹣ / 3457891 / 3457914
1 / ﹣ / 144254258 / 144254276
un / ﹢ / 50465392 / 50465415
un / ﹢ / 44267779 / 44267802
un / ﹢ / 4230453 / 4230476
1 / ﹢ / 144217790 / 144217813
1 / ﹢ / 144233057 / 144233080
1 / ﹢ / 144236750 / 144236773
1 / ﹢ / 144302831 / 144302854
B1-84 / 25 / ATGATGCAGGTCGTGTCCTGCGTCG / 3 / intergene / 12 / ﹣ / 2565295 / 2565319
12 / ﹢ / 2575821 / 2575845
z / ﹢ / 54906061 / 54906085
AD-3 / 25 / GAGGTATCTTTAGGCCTGTGGTGGC / 12 / contig / un / ﹣ / 54622727 / 54622751
un / ﹣ / 30980363 / 30980387
un / ﹣ / 21693952 / 21693976
un / ﹣ / 21827171 / 21827195
un / ﹣ / 21831073 / 21831097
un / ﹢ / 63323344 / 63323368
un / ﹢ / 55849247 / 55849271
un / ﹢ / 47514199 / 47514223
un / ﹢ / 34912638 / 34912662
un / ﹢ / 27267155 / 27267179
un / ﹢ / 27270556 / 27270580
un / ﹢ / 21769104 / 21769128
AD-10 / 24 / 2 / repeat / 7 / ﹣ / 11765132 / 11765155
7 / ﹢ / 10236410 / 10236433
AD-14 / 22 / GTGTTAGAAGGTAAGGGGGCCC / 12 / repeat / un / ﹣ / 18743272 / 18743293
3 / ﹣ / 41278590 / 41278611
1 / ﹣ / 188835026 / 188835047
1 / ﹣ / 119486323 / 119486344
1 / ﹣ / 119506284 / 119506305
1 / ﹣ / 76021155 / 76021176
1 / ﹢ / 119103440 / 119103461
1 / ﹢ / 119332828 / 119332849
1 / ﹢ / 117536461 / 117536482
1 / ﹢ / 117555799 / 117555820
1 / ﹢ / 117816408 / 117816429
1 / ﹢ / 117836472 / 117836493
AD-25 / 25 / TGTAGCGTAGCCATGGTTGTGCAAA / 3 / intergene / 1 / ﹣ / 187171070 / 187171094
1 / ﹣ / 187177842 / 187177866
1 / ﹢ / 187201093 / 187201117
AD-35 / 24 / GCCCATGACGAGCATGTCGGATAG / 4 / contig / un / ﹣ / 53844276 / 53844299
2 / ﹣ / 35733035 / 35733058
2 / ﹣ / 35757240 / 35757263
un / ﹢ / 23977947 / 23977970
AD-39 / 23 / AGCATGAATTTGATGGCGCTGAC / 3 / contig / un / ﹣ / 2983451 / 2983473
un / ﹣ / 602764 / 602786
un / ﹢ / 14870239 / 14870261
AS-1 / 22 / CGACACAGAAGACAGTGCCCAA / 1 / intergene / 2 / ﹣ / 48574298 / 48574319
AS-22 / 21 / CAGCCTGAAGCGGGCTGCGGG / 2 / contig / un / ﹢ / 53754994 / 53755014
12 / ﹢ / 2159092 / 2159112
BD-7 / 26 / TCCTGTGCTGCCTGTGTCAGCTGGGG / 1 / intergene / 1 / ﹢ / 61317174 / 61317199
BD-38 / 27 / CTTCCAGGCCCAGCAGCCTCCGGGCCT / 4 / intergene / 2 / ﹢ / 6982404 / 6982430
2 / ﹢ / 6985867 / 6985893
z / ﹣ / 57787314 / 57787482
z / ﹣ / 57791079 / 57791421
BD-39 / 24 / CACGAGTGGTGTCCTAATGATGTT / 5 / contig / un / ﹣ / 36690045 / 36690068
un / ﹣ / 28785811 / 28785834
un / ﹢ / 38865082 / 38865105
un / ﹢ / 38866398 / 38866421
un / ﹢ / 38867425 / 38867448
BD-40 / 24 / AAAGCAGAGACAAAGGGTGCGAAG / 1 / repeat / 19 / ﹣ / 4771989 / 4772012
BS-45 / 22 / CCATGAGAAACGAGGCCTGAAA / 3 / contig / un / ﹣ / 34190605 / 34190626
6 / ﹣ / 4743867 / 4743888
un / ﹢ / 21398011 / 21398032
AD--28 / 27 / TTTGGATGTCAGGGGAAAGTTCTTTAC / 1 / repeat / 2 / ﹢ / 126731218 / 126731244
AD-37 / 26 / AAGCCGAAGTGTTGACACAAGACAGG / 1 / repeat / 1 / ﹣ / 60335150 / 60335157
AD-38 / 27 / GAATCAACCCCACAGTGGCCTTAGCAA / 1 / intron / 22 / ﹣ / 4387 / 4413
AS-21 / 24 / TGCAAAGTAAGGCCCGCACGCAGG / 2 / intergene / 2 / ﹢ / 75987561 / 75987584
2 / ﹢ / 75998099 / 75998122
AS-23 / 25 / TGCCCAGAGAGGCCGTGTGTGCCCA / 1 / repeat / z / ﹣ / 64682959 / 64682983
BD-5 / 23 / AGAGGTGTGAGCACAGCAGAGCC / 1 / intron / 19 / ﹣ / 7610819 / 7610841
BD-42 / 26 / TTGGTTCAGGCCTGCTGCCGCTCCCC / 2 / intergene / 7 / ﹢ / 2854577 / 2854602
7 / ﹢ / 1506527 / 1506552
BD-43 / 25 / TCAGCGGCTGCTTTTGGTCTTCAGG / 10 / contig / un / ﹣ / 62142469 / 62142493
un / ﹣ / 45978294 / 45978318
un / ﹣ / 44103009 / 44103033
un / ﹣ / 38689252 / 38689276
un / ﹣ / 33591983 / 33592007
un / ﹣ / 33608319 / 33608343
un / ﹣ / 33626820 / 33626844
un / ﹣ / 33629494 / 33629518
un / ﹢ / 53287942 / 53287966
un / ﹢ / 27144377 / 27144401
BS-37 / 23 / TACAAAGGCAAGCATGGAGCTGC / 1 / intergene / 2 / ﹢ / 47403424 / 47403446
BS-47 / 26 / TTGCATAACTATATCAGGTACCTAAA / 1 / intergene / un / ﹣ / 41910805 / 41911290
AD1-3 / 23 / GCCGTGAGAAGATGGGGAAGAAA / 1 / intron / z / ﹣ / 61244721 / 61244743
AD1-4 / 24 / TGATGGTCATCTGCCAGAGAGGGG / 1 / intron / z / ﹣ / 63824479 / 63824502
AD2-29 / 24 / GCAGCAGGTGTCTCTGCCGAGGGC / 1 / intergene / 1 / ﹣ / 67884332 / 67884355
AS1-3 / 27 / TCTGACTGCTTGATGCCGGATGGCT / 1 / intergene / 1 / ﹣ / 51101242 / 51101266
AS2-4 / 23 / TGGCCATGCCAACACGGCGCTGC / 4 / intergene / 4 / ﹣ / 25489696 / 25489718
4 / ﹣ / 25494015 / 25494037
4 / ﹣ / 25495191 / 25495213
4 / ﹣ / 25511914 / 25511936
AS2-9 / 22 / TGAGCCAAGATATTTATGCTAG / 1 / intergene / 19 / ﹢ / 2400299 / 2400320
AS2-14 / 23 / GCCTCACCTTCTGGTCTGCCTGC / 1 / intron / 28 / ﹣ / 53995 / 54017
AS2-17 / 22 / CGGGCACGTGGGCGCCCTGCAG / 2 / intergene / 1 / ﹢ / 59242326 / 59242347
1 / ﹢ / 59338291 / 59338312
BD1-4 / 27 / TGGACCGGCTTCCAGCAGCCTCTGTGG / 1 / intergene / 12 / ﹢ / 2159463 / 2159489
BD2-17 / 27 / TGCTGAGTGAGATGCCGAGACACGCTG / 1 / intergene / 1 / ﹢ / 117809301 / 117809327
BD2-19 / 27 / TTATCTCCAGGAGTACCCTATAGTGCC / 1 / intergene / 20 / ﹣ / 4319002 / 4319028
BD2-20 / 26 / GCCATGGGTGTTGTCACTTGAGTTGT / 1 / intergene / 1 / ﹢ / 108469816 / 108469841
BD2-21 / 26 / TCTGATGCCGAGTTGGTGTCCTGTGC / 2 / intergene / 4 / ﹣ / 44591817 / 44591842
1 / ﹣ / 69277751 / 69277776
BD2-25 / 27 / TGGAAGATGTGGTTCTGTACGGGACT / 2 / intergene / 5 / ﹢ / 59305321 / 59305346
5 / ﹢ / 59393171 / 59393196
BD2-49 / 23 / TTCCACAGGCTCCCCAAAAGTGT / 1 / intergene / 3 / ﹢ / 104632195 / 104632217
BD2-69 / 24 / TTCTGAGCTGGCTCGGGGAATTGG / 5 / contig / un / ﹣ / 5541584 / 5541607
1 / ﹣ / 187169666 / 187169689
un / ﹢ / 56780538 / 56780561
1 / ﹢ / 187202312 / 187202335
1 / ﹢ / 187213455 / 187213478
BD2-85 / 26 / TGCCTCAATGACTGTGCCTCACGAGA / 5 / contig / un / ﹣ / 43527197 / 43527222
un / ﹣ / 42726067 / 42726092
un / ﹣ / 26072154 / 26072179
un / ﹢ / 16469719 / 16469744
un / ﹢ / 3983445 / 3983470
BD2-93 / 24 / TGCTATTTCTGAGGACGGGATGGA / 3 / intergene / 2 / ﹢ / 45923498 / 45923521
2 / ﹢ / 44281472 / 44281495
2 / ﹢ / 44798884 / 44798907
BS1-2 / 26 / ACTTCTTGATGTATTCCGCGCTCCCT / 10 / contig / un / ﹣ / 31701353 / 31701378
un / ﹣ / 31704005 / 31704030
un / ﹣ / 31712673 / 31712698
un / ﹣ / 31716195 / 31716220
un / ﹣ / 4052803 / 4052828
un / ﹢ / 43945460 / 43945485
un / ﹢ / 42210994 / 42211019
5 / ﹢ / 5756281 / 5756306
5 / ﹢ / 5767262 / 5767287
5 / ﹢ / 6502217 / 6502242
BS1-5 / 24 / TCCTCTGAGAAAGGTGTGTCCCAT / 1 / repeat / 4 / ﹣ / 45498178 / 45498201
BS1-12 / 25 / TGCAATGACCTGTCCCTCCCCACAA / 2 / intron / z / ﹢ / 66361591 / 66361615
z / ﹢ / 66384054 / 66384078
BS2-19 / 23 / AGCAAATGCGAGCAGCGGTGAGC / 4 / contig / 1 / ﹣ / 1507248 / 1507270
un / ﹢ / 30331092 / 30331114
1 / ﹢ / 3989203 / 3089225
1 / ﹢ / 4009323 / 4009345
BS2-20 / 21 / TCCTTCCAAGCAGTTGACCCG / 7 / intergene / un / ﹣ / 60267209 / 60267228
un / ﹣ / 15569053 / 15569072
5 / ﹣ / 58752980 / 58752999
5 / ﹣ / 58901981 / 58902000
3 / ﹣ / 83512671 / 83512690
28 / ﹣ / 4466481 / 4466500
18 / ﹣ / 3354946 / 3354965
BS2-22 / 23 / GTCCAGGATCTGCCGGTGCTGCC / 2 / intergene / 2 / ﹣ / 44093719 / 44093741
2 / ﹢ / 44004245 / 44004267
BS2-23 / 23 / AGGGCCTGGTGTCCTCTGGGTGG / 1 / intergene / 2 / ﹣ / 45186827 / 45186849
BS-5 / 26 / TTCAGTCTGTCCTTGAAGATTATTGG / 1 / intergene / 9 / ﹢ / 4420066 / 4420091
BS2-48 / 24 / TGCCCAGAGCTTTGTGCTCCACGG / 1 / repeat / 11 / ﹣ / 2373623 / 2373646
BS2-59 / 25 / TAGTCCCAAGACAGACCCCTGGGGG / 1 / repeat / 1 / ﹢ / 131003329 / 131003353
BS2-80 / 25 / GACCCGTGTAGAGCTCGGATGTGC / 1 / contig / un / ﹢ / 42068178 / 42068201
BS2-85 / 26 / TGTCCGGCTTGTTCCGCGCTGCCTGG / 3 / contig / un / ﹣ / 21944366 / 21944391
un / ﹢ / 40805967 / 40805992
un / ﹢ / 15189717 / 15189742
BS2-89 / 23 / TGTTACCAAAGTCCAACCAGTCC / 3 / repeat / un / ﹣ / 62490892 / 62490914
1 / ﹢ / 197740647 / 197740669
1 / ﹢ / 197743827 / 197743849
BS2-91 / 26 / TCCTCAGGGATGTCCTGCAGCTTGGC / 3 / intron / z / ﹢ / 54904016 / 54904041
z / ﹢ / 54909028 / 54909053
z / ﹢ / 54914529 / 54914554
BS2-92 / 24 / TCATATCCGTTGGTGGTGCACCAA / 1 / intergene / 3 / ﹢ / 926880 / 926903
BS3-4 / 21 / CGCAGGGCCAGCCTCTGCAGC / 2 / intergene / 2 / ﹢ / 75987579 / 75987599
2 / ﹢ / 75998117 / 75998137
BS3-8 / 24 / TTGCTACAGCATCCGTCACGAGAA / 6 / repeat / un / ﹣ / 3458717 / 3458740
1 / ﹢ / 144226291 / 144226314
1 / ﹢ / 144229550 / 144229573
1 / ﹢ / 144232231 / 144232254
1 / ﹢ / 144235924 / 144235947
1 / ﹢ / 144245606 / 144245629
BD-12 / 27 / TTTCCTTCAGTGAAGTATCAGCTCAGT / 4 / intergene / 18 / ﹣ / 1807056 / 1807082
18 / ﹣ / 1822851 / 1822877
18 / ﹣ / 1837506 / 1837532
18 / ﹣ / 1859805 / 1859831
BS3-40 / 24 / TGATGAGCTCCCAGGGCCTGGGGA / 4 / contig / un / ﹣ / 22686044 / 22686066
1 / ﹢ / 1526940 / 1526962
1 / ﹢ / 1530432 / 1530454
1 / ﹢ / 1854031 / 1854053
AD1-7 / 28 / TTAGGTGCGGCTTTTTGCCTCGATTTGG / 1 / intergene / z / ﹢ / 54917286 / 54917313
AD2-16 / 27 / TTCTGCTCGTAAATGGCGATGTGCATG / 1 / intergene / 1 / ﹢ / 92769035 / 92769061
AS1-7 / 25 / TGTCAGCCAGCATGTCTCCAGAGGC / 1 / intergene / z / ﹣ / 65795292 / 65795316
AS1-12 / 23 / GCTGACGATGGTGTCAGTGAGCC / 1 / intergene / 1 / ﹣ / 61317270 / 61317292
AS1-13 / 28 / TCTGTAAAGAAAGCCTTGTGAACTGTTC / 2 / intergene / 12 / ﹣ / 41142 / 41169
10 / ﹣ / 20923 / 20950
AS2-7 / 23 / TCACCTGGACTTCTTGGTGGTGA / 1 / intergene / 9 / ﹣ / 4416383 / 4416405
BD1-9 / 23 / ACAAGCCAGAGGGGCAGTGAAAA / 1 / intergene / 11 / ﹢ / 2676149 / 2676171
BD1-21 / 25 / TGTCCCATGAATAGCACATGAGGTG / 1 / intergene / 11 / ﹣ / 2660461 / 2660485
BD1-26 / 24 / TTCTGGAAGTCGCCGGTTTGACCA / 5 / intergene / 20 / ﹣ / 3509349 / 3509372
20 / ﹣ / 3514998 / 3515021
20 / ﹢ / 3932298 / 3932321
20 / ﹢ / 3935923 / 3935946
20 / ﹢ / 4039989 / 4040012
BD2-78 / 28 / TACCAGGCGTACTGATGTTAGATGAA / 1 / repeat / z / ﹣ / 74122962 / 74122987
BD2-80 / 28 / CTAACACAGGTCAGCAGAGCTCACTGG / 3 / intergene / 1 / ﹣ / 130050489 / 130050515
1 / ﹢ / 125688482 / 125688508
1 / ﹢ / 120934751 / 120934777
BD2-81 / 24 / TCACTGCTGGAGGTACGATGGCTG / 1 / contig / un / ﹢ / 51681527 / 51681550
BS1-10 / 23 / TCTTGTCAAGGATTGCTGGTCGA / 1 / contig / un / ﹣ / 24413543 / 24413565
BS1-11 / 22 / TGAGAAGTGCTGTGAGGAGGGC / 3 / contig / 12 / ﹣ / 2176443 / 2176464
z / ﹢ / 59639434 / 59639455
un / ﹢ / 24961987 / 24962008
BS2-55 / 24 / TGAGCCTGTGAGAGTCTGCAGCAG / 7 / un / ﹣ / 8705018 / 8705040
1 / ﹣ / 126879750 / 126879772
z / ﹢ / 66388044 / 66388066
1 / ﹢ / 127996950 / 127996972
1 / ﹢ / 128000888 / 128000910
1 / ﹢ / 120341494 / 120341516
1 / ﹢ / 120937918 / 120937940
BS2-56 / 25 / TTCAGCATGGACTGAGAGCAGTGCC / 4 / intergene / 3 / ﹣ / 104623301 / 104623325
3 / ﹣ / 104629629 / 104629653
un / ﹢ / 45266962 / 45266986
3 / ﹢ / 104453364 / 104453388
BS1-4 / 23 / AGATGACGCAGTCGGTGCCTTGG / 1 / intron / 28 / ﹣ / 54638 / 54660
BS1-3 / 24 / GCATCCCGGCAGGAAGCGTTGAGG / 4 / intron / 1 / ﹣ / 1507395 / 1507418
1 / ﹣ / 1512810 / 1512838
1 / ﹣ / 1537288 / 1537311
un / ﹢ / 30330944 / 30330967
BS1-13 / 22 / TTGAGGTAGTAGGTTGTATAGT / 1 / intergene / 24 / ﹢ / 3380996 / 3381017
BD-1 / 24 / TGCTGGCTTACGCTCGACTTGCCA / 1 / repeat / 1 / ﹣ / 91842384 / 91842407
BD-4 / 29 / TGTGACCACACTGGTGCTTCTGCACCACC / 1 / intron / 1 / ﹢ / 120935317 / 120935345
BD-5 / 25 / TTTCTCAGGGTCCACTGAAGGATGC / 1 / intron / 14 / ﹣ / 11909501 / 11909525
BD-15 / 24 / CTGGGAGTTAGAGAGTGAATGCTG / 1 / repeat / 2 / ﹢ / 134332983 / 134333006
BD-21 / 25 / TGACTGGGACCCGCACGAATGTCAG / 1 / intergene / 1 / ﹢ / 59088178 / 59088202
BD-61 / 33 / TGCATTGGTGGTTCAGTGGTAGAATTCTCGCCT / 1 / intergene / 7 / ﹣ / 37679986 / 37680018
BD-64 / 27 / TTCTCTCCTTGGCTATGCAACAGGTGG / 2 / intergene / 2 / ﹢ / 45677571 / 45677597
2 / ﹢ / 45687751 / 45687777
BD-68 / 27 / TTCTGCCAGGGAAAGCATTCTCTTCCA / 1 / intergene / z / ﹢ / 66291469 / 66291495
BS-30 / 24 / GTCAACTAGAATGGTGGCTTTGTC / 1 / repeat / 19 / ﹣ / 4771914 / 4771937
BS-64 / 24 / TTGGAGGATGAGGCCTGGACCAAG / 2 / contig / z / ﹣ / 66361053 / 66361076
z / ﹣ / 66383516 / 66383539
BD-90 / 23 / CCTTGGACATCTCCCCTGTGGCC / 1 / intergene / 1 / ﹢ / 120938289 / 120938312
BS-6 / 24 / TTGTACCTGGGATGTCCCTGGTGA / 1 / intergene / 1 / ﹣ / 86665267 / 86665290
BS-14 / 24 / TTTTGTTCGGACTGGTGGGCCTGT / 1 / repeat / z / ﹢ / 59637336 / 59637359
B1-4 / 27 / AGTTGGACCTACAGAGCAGTCTGGGAG / 1 / intergene / 1 / ﹣ / 91841929 / 91841955
BD2-74 / 29 / CCCTTCGTGAAACTAGCAGAAACTCGTGC / 1 / intergene / 1 / ﹣ / 78464931 / 78464959
bd-60 / 27 / TGGCACGAAGCTGTGGCACGTTTTTCC / 3 / intergene / un / ﹣ / 24812125 / 24812150
1 / ﹣ / 92769580 / 92769605
1 / ﹣ / 90876279 / 90876304
BS1-13 / 20 / TAAGGTGCATCTAGTGCAGA / 1 / intergene / 1 / ﹣ / 152248686 / 152248705
AA1-10 / 26 / TTCATAGGACTCCTTGTCCTCCCAT / 2 / extronic / 1 / ﹣ / 187164807 / 187164831
1 / ﹣ / 187168694 / 187168718
B1-26 / 26 / TCTCACGGCACGGACGTTCCGGGTCT / 2 / extronic / un / ﹢ / 52254585 / 52254610
un / ﹢ / 24443793 / 24443818
A1-46 / 27 / TCGCGGTAGAATTTCATTTGAAATGTC / 3 / extronic / un / ﹣ / 51591865 / 51591891
un / + / 30392941 / 30392967
un / + / 30414328 / 30414354
AD-13 / 23 / TCCTTGAGATAAGTACACACAAA / 1 / extronic / z / + / 33159690 / 33159712
BD-35 / 28 / GAGACCGGGGTTCGATTCCCCGACGGGG / 9 / extronic / 1 / ﹣ / 87494751 / 87494778
1 / ﹣ / 48519407 / 48519434
15 / ﹢ / 4537339 / 4537366
15 / ﹢ / 4537962 / 4537989
13 / ﹢ / 4459867 / 4459894
1 / ﹢ / 87496031 / 87496058
1 / ﹢ / 87496673 / 87496700
1 / ﹢ / 48519198 / 48519225
1 / ﹢ / 47620108 / 47620135
BD-36 / 25 / GTGCTCACGCAATGCTATATTGGGT / 1 / extronic / 4 / ﹢ / 14325447 / 14325471
BD-41 / 25 / GCAGAGGCGTTTGTTGCTCTTGGTG / 7 / extronic / 18 / ﹣ / 1797327 / 1797351
18 / ﹣ / 1810694 / 1810718
18 / ﹣ / 1816216 / 1816240
18 / ﹣ / 1832074 / 1832098
18 / ﹣ / 1838219 / 1838243
18 / ﹣ / 1843853 / 1843877
18 / ﹣ / 1860524 / 1860548
BS-36 / 23 / CCCCAGGGAAGTGGTTGAGTCAG / 4 / extronic / z / ﹢ / 69119648 / 69119670
z / ﹢ / 69136557 / 69136579
z / ﹢ / 69140713 / 69140735
z / ﹢ / 14127423 / 14127445
BD2-70 / 26 / TCCAGAACCACCTTGAGGGGCACT / 1 / extronic / un / ﹣ / 23324736 / 23324759
BD2-94 / 28 / TTTCCACCTTCTATAGCGGTTTTGAGAG / 1 / extronic / 14 / ﹢ / 15583552 / 15583579
BS3-11 / 23 / TGCGTGGAGATGAGCGCAGGTGC / 2 / extronic / 19 / ﹣ / 4182136 / 4182158
19 / ﹣ / 4778030 / 4778052
AD1-15 / 23 / TCCCAGGGGCTCTGACCAACACC / 1 / extronic / z / ﹢ / 65058704 / 65058726
BD1-24 / 27 / ACCGCTTGTACCTCATTGGTAGACCG / 6 / extronic / un / ﹣ / 16384717 / 16384742
un / ﹣ / 6434481 / 6434506
6 / ﹣ / 11409118 / 11409143
2 / ﹣ / 83793612 / 83793637
3 / ﹢ / 58484356 / 58484381
1 / ﹢ / 145647604 / 145647629
BS2-15 / 24 / TGTCAGGCTCTGGATCTGCCTCC / 3 / extronic / 1 / ﹣ / 187164242 / 187164264
1 / ﹣ / 187168129 / 187168151
1 / ﹣ / 187177310 / 187177332
BD-69 / 27 / TGTTGGGGTGCCTGCCCTGCCTCGATG / 5 / extronic / 20 / ﹣ / 3497977 / 3498003
20 / ﹢ / 2982415 / 2982389
20 / ﹢ / 3124977 / 3125003
20 / ﹢ / 3288835 / 3288861
20 / ﹢ / 2029957 / 2029983
BD-77 / 27 / TTCCCATGAGAAATGAGGTGCCAGCCC / 2 / extronic / un / ﹢ / 54587452 / 54587478
9 / ﹢ / 4409925 / 4409951
BS-3 / 25 / TCTGAGCACAGGTGATGGCTTACA / 2 / extronic / 20 / ﹣ / 1437711 / 1437734
20 / ﹣ / 1427382 / 1427405
BS-96 / 24 / TGGGGTTCCACTGGGAGATGGTCA / 1 / extronic / 2 / ﹢ / 45161836 / 45161858
BS-86 / 24 / TGTCTGAGGCAAAGCTTTATTGGG / 1 / anti-est / z / ﹣ / 8502389 / 8502412
BD1-20 / 23 / TTGTGGTAGCAAGGGTAATGGGA / 100 / extronic
BD2-82 / 27 / TCCTGGAGAAGGCCTGCATTTGATCA / 68 / extronic
BD-14 / 24 / TGGCCTTGAATGCCTGCAGGGATG / 88 / extronic
BS-15 / 23 / TGCCCCCCTGTCACGGGCATAGA / 21 / extronic
BS-14 / 23 / TTGGCTATATATGAACACAATTC / 21 / extronic
B1-5 / 24 / GCTCAGCCACCGGCTCAGCTCGCA / 19 / extronic
BB1-26 / 22 / TCCCACCGCAATGGAGGCGTGA / 87 / repeat
BS-53 / 24 / GGAGCTCTGAAACCGTTCCAGTTG / 90 / repeat
AS1-28 / 24 / TACCTTGAAACATGGAGCTGAGGA / 23 / intergene
BD-75 / 24 / TGAGTGTAAAGATGATGTCCGAGC / 20 / intergene
BS-32 / 24 / TTTGCTGGCTCATGCCCAGCTTCC / 19 / intergene
BS-15 / 23 / TGCCCCCCTGTCACGGGCATAGA / 34 / extronic