1 SI
Table S5Details of single nucleotide polymorphismSNP and insertion/deletionInDel observed in Pusa 1266/Pusa Basmati 1 bypair wise DNA sequence alignment of the promoter regions of eightdifferentially expressed genes in the qGN4-1 region after resequencing.
S. No. / Gene_Id / Alignment region / SNPs / InDels1 / LOC_Os04g51320 / -946 to -415 / - / -
2 / LOC_Os04g51460 / -902 to -407 / C/G-409 / -/A-894, A/--861, A/--856
3 / LOC_Os04g51794 / -1024 to -478 / G/C-1022, A/T-1019, A/T -1017, C/T-1009, C/G-1001, C/T-986, C/G-981, / TGGAACACTAAAA/--978 to -966, C/--957,
T/--947, T/--938, C/--933, G/--922, C/--912, A/--886, C/--849, -/T-648, -/T-564, T/--489, A/--482
4 / LOC_Os04g51800 / -927 to -475 / T/A-601, G/C-593, A/G-504, A/G-497 / T/--921
5 / LOC_Os04g52310 / -1007 to -63 / - / C/--1004, A/--997, A/--973, -/A-843, A/--442, T/--167, G/--139, A/--102, T/--92, C/--86, A/--76, G/--64
6 / LOC_Os04g52479 / -499 to -99 / - / T/C-487, -/T-436, T/--402, -/T-313, -/T-109
7 / LOC_Os04g52540 / -680 to -351 / GCT/TGA-653 to -651, GG/TT-646 to -645, GT/TC-638 to -637, A/G-624,CG/TA-576 to -575, C/T-569, T/C-544, A/T-468, AC/GT-397to -396,T/C -394, T/A-355 / -/AT-649 to -648, -/T-641, C/--618,
-/GGAGGGAGAGTAGAGAGGA-605to -586,
GATCC/--536 to -532, T/--507,CAGTCGG/--378 to -371
8 / LOC_Os04g52590 / -320 to -1 / A/T-307 / -
Fig. S1Frequency distribution of primary branches per panicle in RIL population derived from cross between Pusa 1266 (P1) and Pusa Basmati 1 (P2) in three different years
Fig. S2Frequency distribution of secondary branches per panicle in RIL population derived from cross between Pusa 1266 (P1) and Pusa Basmati 1 (P2) in three different years
Fig. S3Frequency distribution of panicle length in RIL population derived from cross between Pusa 1266 (P1) and Pusa Basmati 1 (P2) in three different years
Fig. S4Frequency distribution of panicle number in RIL population derived from cross between Pusa 1266 (P1) and Pusa Basmati 1 (P2) in three different years
1 SI
1 SI
1 SI
1 SI
Pusa 1266 CTAACTAATT ACTTAATACT CTCTCCGTTT GAAAATAAGA TATTCTTGTT
Pusa Basmati 1 CTAACTAATT ACTTAATACT CTCTCCGTTT GAAAATAAGA TATTCTTGTT
Pusa 1266 TTCCACAAAG TCAAACATTT AATTTTTTTA CTGATAATTA AACTCAACAT
Pusa Basmati 1 TTCCACAAAG TCAAACATTT AATTTTTTTA CTGATAATTA AACTCAACAT
Pusa 1266 TAACTCTCTC CGTTTTATAT TGTAAAGTCG CTTTGACTTT TTTCTGAAGT
Pusa Basmati 1 TAACTCTCTC CGTTTTATAT TGTAAAGTCG CTTTGACTTT TTTCTGAAGT
Pusa 1266 GAGCTTATAG AAAAATATAA CAACTCTTAC TATCTTACTC TCTCCGTTCT
Pusa Basmati 1 GAGCTTATAG AAAAATATAA CAACTCTTAC TATCTTACTC TCTCCGTTCT
Pusa 1266 ATAATATAAG AGATTTTGGA TGAATATGAC ATATTCTAGT ACTACAAATC
Pusa Basmati 1 ATAATATAAG AGATTTTGGA TGAATATGAC ATATTCTAGT ACTACAAATC
Pusa 1266 TGGACAAGCA GTCTGTTCAG ATTTATAATA CTAGAATATG TCACATCCCT
Pusa Basmati 1 TGGACAAGCA GTCTGTTCAG ATTTATAATA CTAGAATATG TCACATCCCT
Pusa 1266 CTAAAATCCC TTATATTATG AGACAGAGAA AGTACAACAC TAGATTAGAT
Pusa Basmati 1 CTAAAATCCC TTATATTATG AGACAGAGAA AGTACAACAC TAGATTAGAT
Pusa 1266 CCACTAAATC TGACATTAAA TATATTTTGA TAGTACACAT GTTTAGTGTT
Pusa Basmati 1 CCACTAAATC TGACATTAAA TATATTTTGA TAGTACACAT GTTTAGTGTT
Pusa 1266 ATACATGTAG TATCGCTAAA TTCGTATTTG GCAATCTTTT TACATATGTC
Pusa Basmati 1 ATACATGTAG TATCGCTAAA TTCGTATTTG GCAATCTTTT TACATATGTC
Pusa 1266 AATTTTGTAG TTATTGGTAA TATATTATAA AAAGAATTAA TAATAAAAAA
Pusa Basmati 1 AATTTTGTAG TTATTGGTAA TATATTATAA AAAGAATTAA TAATAAAAAA
Pusa 1266 TATGTAATAT TGGACGNTGG GGAGGAACAA AA
Pusa Basmati 1 TATGTAATAT TGGACGNTGG GGAGGAACAA AA
1) Transcription factor GT-3b (LOC_Os04g51320): Sequence alignment from -946 to -415 bpupstream from the start codon with referenceto Nipponbare sequence
Pusa 1266 TGATCTTA-G GGGCCCGTGG ATGACCTCAC GGCTCTTGCC AGTTGACCGC
Pusa Basmati 1 TGATCTTAAG GGGCCCGTGG ATGACCTCAC GGCTCTTGCC -GTTG-CCGC
Pusa 1266 AGNTGGCCGG AAATGGTACG CAGATGCGCG TCGCGTTACT CGCTTTCCGC
Pusa Basmati 1 AG-TGGCCGG AAATGGAACG CAGATGCGCG TCGCGTTACT CGCTTTCCGC
Pusa 1266 TTTGCTGCGC GCAGCGCGAG AAAAAAGCAC ACGACCAGAA TTCCACAAAA
Pusa Basmati 1 TTTGCTGCGC GCAGCGCGAG AAAAAAGCAC ACGACCAGAA TTCCACAAAA
Pusa 1266 CCGTGTCCCA CTCTCAGTCT CCCCACCTTT TGTCGTGTCT CCCCATCTTC
Pusa Basmati 1 CCGTGTCCCA CTCTCAGTCT CCCCACCTTT TGTCGTGTCT CCCCATCTTC
Pusa 1266 ACTTGTTTTC TCGCCAAATC CTACGTGAGT CGCTCTCTCG AGCAGTCGAG
Pusa Basmati 1 ACTTGTTTTC TCGCCAAATC CTACGTGAGT CGCTCTCTCG AGCAGTCGAG
Pusa 1266 CGCGCACAGG GCGCCCCGCT GTCCTCCGCG CATCGCCAGC CCACGCCCCC
Pusa Basmati 1 CGCGCACAGG GCGCCCCGCT GTCCTCCGCG CATCGCCAGC CCACGCCCCC
Pusa 1266 GCGAACCTGA CACGAACATG CGCCTCGCCA CTGCAGCCTG CACTGTACTA
Pusa Basmati 1 GCGAACCTGA CACGAACATG CGCCTCGCCA CTGCAGCCTG CACTGTACTA
Pusa 1266 CACCCCTCAT CCTCCTCGAT CAATTCGTAC ACACTCTCCC AACCACCTCC
Pusa Basmati 1 CACCCCTCAT CCTCCTCGAT CAATTCGTAC ACACTCTCCC AACCACCTCC
Pusa 1266 GTCACCCTCA CGCTTAACTC CTACCCCACG CCCAGCAAAA ACATCGTCTA
Pusa Basmati 1 GTCACCCTCA CGCTTAACTC CTACCCCACG CCCAGCAAAA ACATCGTCTA
Pusa 1266 TATAAACCCT GCGAGGCACG CACCAATGCG ATCACTACAC CTT
Pusa Basmati 1 TATAAACCCT GCGAGGCACG CACCGATGCG ATCANTACAC GTT
2) Glycosyl hydrolases family 16 (LOC_Os04g51460): Sequence alignment from -902 to -407 bpupstream from the start codon with reference toNipponbare sequence
Pusa 1266 TTGGAATATC CCCCNCNTTG GTCCCGGNTT NNGGGATNCC CTCCCCGTGG
Pusa Basmati 1 TTCGATTTCC CCCCNTTTTG GTCGCGGGTT CTGGGATCTC CTCCGCC---
Pusa 1266 AACACTAAAA CGCGCGGCCG TGCGGCGTTC CGATCCTTGC GCCCGCTGCC
Pusa Basmati 1 ------CGCGCGGC-G TGCGGCGT-C CGATCCT-GC GCC-GCTGCC
Pusa 1266 CCGGGCGGCC CTCCCCATCT CGGTTCGAAT TCGAGCTGAA AGGTATTCGT
Pusa Basmati 1 CCGG-CGGCC CTCCC-ATCT CGGTTCGAAT TCGAGCTGAA -GGTATTCGT
Pusa 1266 TCGTTGTTCT TCTCTCGTAG CCCATCCCTT CCCCTCCCTC CCCTCCGCGC
Pusa Basmati 1 TCGTTGTTCT TCTCTCGTAG CCCATCC-TT CCCCTCCCTC CCCTCCGCGC
Pusa 1266 TCATCGTGCT GTAGATTTTG ATATCCATCT GGGCTTGGAT TGAGATTGGG
Pusa Basmati 1 TCATCGTGCT GTAGATTTTG ATATCCATCT GGGCTTGGAT TGAGATTGGG
Pusa 1266 TTTATTTTTT CGCCCCTCCC TCCAATTATT AACCTTCTGT TCCCGATTTT
Pusa Basmati 1 TTTATTTTTT CGCCCCTCCC TCCAATTATT AACCTTCTGT TCCCGATTTT
Pusa 1266 CCTGTACGTG GTGCAGCACT AATACTAGCA ATTTGTAAAA TTTCCCATGT
Pusa Basmati 1 CCTGTACGTG GTGCAGCACT AATACTAGCA ATTTGTAAAA TTTCCCATGT
Pusa 1266 CAGGTCCGCT CCTTAATAGT GTGTTGTTTT TT-GGCTAAA GCTTATCTTC
Pusa Basmati 1 CAGGTCCGCT CCTTAATAGT GTGTTGTTTT TTTGGCTAAA GCTTATCTTC
Pusa 1266 TTGTTATGAT AGATAGCGCA TGCCTTCTTC CGTGTTGGAT CATAAAGATC
Pusa Basmati 1 TTGTTATGAT AGATAGCGCA TGCCTTCTTC CGTGTTGGAT CATAAAGATC
Pusa 1266 GATTTTTTTA TTTTTT-ATT TTTTTGCTGT TTAAGTGATG CATTCGTCAT
Pusa Basmati 1 GATTTTTTTA TTTTTTTATT TTTTTGCTGT TTAAGTGATG CATTCGTCAT
Pusa 1266 ACCTTGTCGT TCTTGTTATG TTTCTTGTTA TGATCTACTA GCACCCA
Pusa Basmati 1 ACCTTGTCGT TCTTGTTATG TTTCTTGTTA TGATC-ACCA GC-CNCA
3) DNA binding protein (LOC_Os04g517940)Sequence alignment from -1024 to -478 bpupstream from the start codon with reference toNipponbare sequence
Pusa 1266 ACTTTGTTTT TTGCTGGACC AGGTTGAATT CGACGCGAGT TTTAAGAGTT
Pusa Basmati 1 ACTTTGTTTT T-GCTGGACC AGGTTGAATT CGACGCGAGT TTTAAGAGTT
Pusa 1266 TGGATTTTTT TTGATTCGTC CATGCTTTTG CGTTTTGCGT AGAGCTTGGG
Pusa Basmati 1 TGGATTTTTT TTGATTCGTC CATGCTTTTG CGTTTTGCGT AGAGCTTGGG
Pusa 1266 ACTTTGGGAG TTCGAGATGG TCTAGTGCGT GGCTGTACAC GTGTCGATCC
Pusa Basmati 1 ACTTTGGGAG TTCGAGATGG TCTAGTGCGT GGCTGTACAC GTGTCGATCC
Pusa 1266 GGGCGCGTAC ACGTGGCCTT CGCGGCGTGC AGAGCTGACG ACACGTCAGA
Pusa Basmati 1 GGGCGCGTAC ACGTGGCCTT CGCGGCGTGC AGAGCTGACG ACACGTCAGA
Pusa 1266 GAACGATGTG ATAGCTGCTA CTACAGTAAC CTGCTGTGGC GTGTACGAAA
Pusa Basmati 1 GAACGATGTG ATAGCTGCTA CTACAGTAAC CTGCTGTGGC GTGTACGAAA
Pusa 1266 AGCTTCGGGA GCACCGCCGC AAAACTTTGC CATTAGATTT CCGAATTTTC
Pusa Basmati 1 AGCTTCGGGA GCACCGCCGC AAAACTTTGC CATTAGATTT CCGAATTTTC
Pusa 1266 CTAAATTACA AGAGATTTGA TGCGAATTTT GAGTGTGAAC ATCAGCAGTT
Pusa Basmati 1 CTAAATTACA AGAGATTTGA TGCGAAATTT GAGTCTGAAC ATCAGCAGTT
Pusa 1266 TGGGCTATGG CCCAACAATA CGTAGCTTCC GAAACCATGA AATAATATGG
Pusa Basmati 1 TGGGCTATGG CCCAACAATA CGTAGCTTCC GAAACCATGA AATAATATGG
Pusa 1266 AATAAGTTCA CCGCCGTCCC TCAACTTTAC ACCGAGATTT TTTGAGATCC
Pusa Basmati 1 AATAAGTTCA CCGCCGTCCC TCAGCTTTAC GCCGAGATTT TTTGAGATCC
Pusa 1266 CTT
Pusa Basmati 1 CTT
4) Myb-like transcription factor 1(LOC_Os04g51800): Sequence alignment from -927 to -475 bpupstream from the start codon with referenceto Nipponbare sequence
Pusa 1266 AAACNCCATG ATGCAGCACA ATTGTGCCTA AAGCATAATT AAAGGGAGCA
Pusa Basmati 1 AAA-NCCATG -TGCAGCACA ATTGTGCCTA AAGC-TAATT AAAGGGAGCA
Pusa 1266 AATGTGATGA ACATACCGAT CCAACATGTC CGACGATAAG TTCATCATGA
Pusa Basmati 1 AATGTGATGA ACATACCGAT CCAACATGTC CGACGATAAG TTCATCATGA
Pusa 1266 GCCATCTAAT CAATTCAGAT TGCACATTCA GGACTCACTG GCAGGCTGGT
Pusa Basmati 1 GCCATCTAAT CAATTCAGAT TGCACATTCA GGACTCACTG GCAGGCTGGT
Pusa 1266 AGCTGATTTG CTTGA-TTCA GATTGACAGC TCAATGCAAA ACTATTGTGT
Pusa Basmati 1 AGCTGATTTG CTTGAATTCA GATTGACAGC TCAATGCAAA ACTATTGTGT
Pusa 1266 TCGAACCATC AGATTTGCAC CTGTACATCT TCCAACCGGA TAAGAACAAT
Pusa Basmati 1 TCGAACCATC AGATTTGCAC CTGTACATCT TCCAACCGGA TAAGAACAAT
Pusa 1266 AATGTTAATT AGAAGTCTTA AGAGATGAAG AAGGGTGGCA ATAGAAGGCA
Pusa Basmati 1 AATGTTAATT AGAAGTCTTA AGAGATGAAG AAGGGTGGCA ATAGAAGGCA
Pusa 1266 AAAAAAAATC TATCTGAATG CTATATCCCC AGCTTTACTC AAGGTGAATA
Pusa Basmati 1 AAAAAAAATC TATCTGAATG CTATATCCCC AGCTTTACTC AAGGTGAATA
Pusa 1266 TAATCAGGTG AAATCTGCTT CAGCCATATT CATTGGTAAT CAGGAGATGG
Pusa Basmati 1 TAATCAGGTG AAATCTGCTT CAGCCATATT CATTGGTAAT CAGGAGATGG
Pusa 1266 GTCAACATGG CATGCGGACG TTAACACTGA ACATGAAGAT TTTTCACATT
Pusa Basmati 1 GTCAACATGG CATGCGGACG TTAACACTGA ACATGAAGAT TTTTCACATT
Pusa 1266 CACCCCACAA CTGATTACCA TGGATGCAAA CAAGTTCCAC ATGAGCCCAG
Pusa Basmati 1 CACCCCACAA CTGATTACCA TGGATGCAAA CAAGTTCCAC ATGAGCCCAG
Pusa 1266 GCTTGATCTA CCTTTATGGC TTTACCATGC NCCCATGATA CACCTGTCAA
Pusa Basmati 1 GCTTGATCTA CCTTTATGGC TTTACCATGC -CCCATGATA CACCTGTCAA
Pusa 1266 TTAACATCAT GATAGAAGTG ATAGCGTTAA ATTACGGTTT ACATATTTAT
Pusa Basmati 1 TTAACATCAT GATAGA-GTG ATAGCGTTAA ATTACGGTTT ACATATTTAT
Pusa 1266 GGAGAGAGTT TGGTCCTTCC ACATTTTTGG GTCAACTTTG TCCAAAGTGC
Pusa Basmati 1 GGAGAGAGTT TGGTCCTTCC ACATTTTTGG GTCAACTTTG TCCAAAGTGC
Pusa 1266 TTTAGTCTAC AGTTTTTGAC ACATGGGCAT AGCTCATCCC ACCTAGACAA
Pusa Basmati 1 TTTAGTCTAC AGTTTTTGAC ACATGGGCAT AGCTCATCCC ACCTAGACAA
Pusa 1266 AGGATGACAT ATCTCCCTAT GATCTCATCC CCTCCTATAT AAATGACCCA
Pusa Basmati 1 AGGATGACAT ATCTCCCTAT GATCTCATCC CCTCCTATAT AAATGACCCA
Pusa 1266 GTATTGCATC CATCTTCTGG CCAAAGAATG ACATCTCTTC TCATCATCTT
Pusa Basmati 1 GTATTGCATC CATCTTCTGG CCAAAGAATG ACATCTCTTC TCATCATCTT
Pusa 1266 ATTCCCTTCT ACTTAAATAA AAAAAGAAGA AGAAAAAACC TCATCNATTG
Pusa Basmati 1 ATTCCCTTCT ACTTAAATAA AAAAAGAAGA AGAAAAAACC –CATC-ATTG
Pusa 1266 CCTCCATCTT CTGGTCAAGA GGATGACATC AATCCCTATC ATCTCAATCC
Pusa Basmati 1 CCTCCATCTT CTGGTCAA-A GGATGACATC AATCCCTATC ATCTCA-TCC
Pusa 1266 CCTCCTTATA TAAAGAANCC CAGTANCTAC CATTCATCTC TGGA
Pusa Basmati 1 CCTCCT-ATA TAAAGAACCC –AGTA-CTAC C-TTCATCTC TG-A
5) Metal cation transporter (LOC_Os04g52310): Sequence alignment from -1007 to -63 bpupstream from the start codon with reference toNipponbare sequence
Pusa 1266 ACTCACACCC TCTTTCCTCT TGTTCTCCAA AGGCAACAGT TACAGCGACC
Pusa Basmati 1 ACTCACACCC TCTT-CCTCT TGTTCTCCAA AGGCAACAGT TACAGCGACC
Pusa 1266 TCAAGAAATC AGGT-CCATG AACGTTAAGG CGTAGCACAT ATTCTCTCNT
Pusa Basmati 1 TCAAGAAATC AGGTTCCATG AACGTTAAGG CGTAGCACAT ATTCTCTCTT
Pusa 1266 TTAATCGCAG CAAATGGGCA TAAATCCACA TGACAACTAC TCCCAATGAT
Pusa Basmati 1 T-AATCGCAG CAAATGGGCA TAAATCCACA TGACAACTAC TCCCAATGAT
Pusa 1266 AGTCCAACAC CACGGCGAGA GAGTAGGACC TACTGCAAAT TT-AGTAATC
Pusa Basmati 1 AGTCCAACAC CACGGCGAGA GAGTAGGACC TACTGCAAAN TTTAGTAATC
Pusa 1266 GGCACTGAAA ATGAAGGTAG GCAAAGGAAT CGTGTACTTT CT-CAAAAGA
Pusa Basmati 1 GGCACTGAAA ATGAAGGTGG GCAAAGGAAT CGTGTACTTT CTNCAAAAGA
Pusa 1266 GGAAAAAGAA AGCAGATACA AAAGGCAAAA ATCACAAGCC GGGAAAAAAT
Pusa Basmati 1 GGAAAAAGAA AGCAGATACA AAAGGCAAAA ATCACAAGCC GGGAAGAAAT
Pusa 1266 TGGTGGCTGA AACAGCAAGC ACATCGTTGT TTCTCTCTAG CCNAGAAACC
Pusa Basmati 1 TGGTGGCTGA AACAGCAAGC ACATCGTTGT TTCTCTCTAG CCAAGAAACC
Pusa 1266 AGTGTGCCAG CGTCGAATCC ACGGATGAGC AATGCTAANT T-CCGCGGCA
Pusa Basmati 1 AGTGTGCCAG CGTCGAATCC ACGGATGAGC AATGCTAACT TTCCGCGGCA
6) Serine and cysteine protease like (LOC_Os04g52479): Sequence alignment from -499 to -99 bpupstream from the start codon with reference to Nipponbare sequence
Pusa 1266 TGTAACGCTA AGGGAGTGAC GGCGGAGGCTG--TGGTGG- GGGTNCAAGT
Pusa Basmati 1 TGTAACGCTN AGGGAGTGAC GGCGGAGTGA GATTTTTGGT GGTCTCAAGT
Pusa 1266 TCAAGATATT GGGAGCTGTG GCGGCGGA------GGA
Pusa Basmati 1 TCAAGATGTT GGGAG-TGTG GCGGCGGAGG AGGGAGAGTA GAGAGGAGGA
Pusa 1266 GGAGCGGGGG ACTAGGGTTT AGGTGTTTGC ACGAATTCCA AAGCGATCCG
Pusa Basmati 1 GGAGTAGGGG ATTAGGGTTT AGGTGTTTGC ACGAATCCCA AAGC-----G
Pusa 1266 ACGTTTCAGA ATTCACAAGA TATTTATGGG CTATTTTTTT TCTAAATGTA
Pusa Basmati 1 ACGTTTCAGA ATTCACAAGA TATTTATGGG CTATTTTTTT -CTAAATGTA
Pusa 1266 CAATAGTCAG TTACTT-CAT TTATTCGT-C T-CACATTCC TAATTTCCAA
Pusa Basmati 1 CAATAGTCAG TTTCTTNCAT TTATTCGTNC TNCACATTCC TAATTTCCAA
Pusa 1266 TTAAGACAGG GACCTAACAG CAAAAAGGCC AAACCCTCCC GCGACAGAAC
Pusa Basmati 1 TTAAGACAGG GACCTAACAG CAAAAAGGCC AAGTCCCCCC GCGACAGAAC
Pusa 1266 GGGCAGTCGG GCACGACCGA GACCCTCGCG
Pusa Basmati 1 GGG------CACGACCGA GACCCACGCG
7)Retrotransposon protein, putative (LOC_Os04g52540): Sequence alignment from -680 to -351 bpupstream from the start codon with referenceNipponbare sequence
Pusa 1266 TTTTTCCAGA TTATTGAGTG GCTAAAAACC AACTACCCTT AGATGCCTCT
Pusa Basmati 1 TTTTTCCAGA TTTTTGAGTG GNTAAAAACC AACTACCCCT AGATGCCTNT
Pusa 1266 AATAATCTAG AGAAACAAAC AACTCGTAGC TTATTTTATA TTAGTTTATT
Pusa Basmati 1 AATAATNTAG AGAAACAAAC AACTCGNAGC NTATTTTATA TTAGTTTATT
Pusa 1266 ATAATCCAGT TTAGAGTAAT CTGATTTAAT AATCTAAATT ACAATAATCT
Pusa Basmati 1 ATAATCCAGT TTAGAGTAAT CTGATTTAAT AATCTAAATT ACAATAATCT
Pusa 1266 TAAACTGAAA CAAACACTAC ATAATACTCT CATTACTCTC CCTCATCTGA
Pusa Basmati 1 TAAACTGAAA CAAACACTAC ATAATACTCT CATTACTCTC CCTCATCTGA
Pusa 1266 TTGCATCCTT GTTTGCATTT GCCTAGCTAA TTAATGCTCC ACATCATCTG
Pusa Basmati 1 TTGCATCCTT GTTTGCATTT GCCTAGCTAA TTAATGCTCC ACATCATCTG
Pusa 1266 TCAGCCACTC TGATCCATCA TCTTCTTCAG AGCAAAATCC AAGAAGAAGG
Pusa Basmati 1 TCAGCCACTC TGATCCATCA TCTTCTTCAG AGCAAAATCC AAGAAGAAGG
Pusa 1266 GGAGAGAGAG AGAGAG
Pusa Basmati 1 GGAGAGAGAG AGAGAG
8)Protein kinase domain containing protein (LOC_Os04g52590): Sequence alignment from -320 to -1 bpupstream from the start codon with referenceto Nipponbare sequence