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Table 2 Details of non-synonymous SNPs that differentiate genes from GA120R1B3 (RKN resistant) and Acala Maxxa (susceptible) lines in the QTL region flank by Gorai.005G026300 and Gorai.005G032200

From: Fine mapping and identification of candidate genes for a QTL affecting Meloidogyne incognita reproduction in Upland cotton

Gene ID Position Strand Ref allele Susceptible allele Resistant allele Ref aa Susceptible aa Resistant aa SNP location Pfam Annotated function
Gorai.005G026500 2345728 + T T G F F L CDS PF08263,PF00560,PF13855 receptor like protein 7
Gorai.005G027700 2415658 - T T G . . . 3-UTR PF02826,PF05221 S-adenosyl-L-homocysteine hydrolase
Gorai.005G028100 2458792 - T T C . . . 3-UTR PF00076 glycine-rich RNA-binding protein 2
Gorai.005G028100 2459025 - A A G . . . 3-UTR PF00076 glycine-rich RNA-binding protein 2
Gorai.005G028100 2460937 - A A T . . . 5-UTR PF00076 glycine-rich RNA-binding protein 2
Gorai.005G028500 2499549 + C C T . . . 3-UTR PF05653 Protein of unknown function (DUF803)
Gorai.005G028600 2502813 + T T A S S R CDS PF08263,PF00560,PF13855 receptor like protein 7
Gorai.005G028600 2502817 + G G A D D N CDS PF08263,PF00560,PF13855 receptor like protein 7
Gorai.005G029200 2599856 + G G T K K N CDS PF08263,PF13855 receptor like protein 6
Gorai.005G029200 2599857 + A A T I I F CDS PF08263,PF13855 receptor like protein 6
Gorai.005G029400 2632994 + T T C V V A CDS PF08263,PF13855 receptor like protein 6
Gorai.005G029400 2634053 + G G C S S T CDS PF08263,PF13855 receptor like protein 6
Gorai.005G029600 2657576 + G G A A A A CDS PF00119 ATPase, F0 complex, subunit A protein
Gorai.005G029600 2657842 + G G A R R Q CDS PF00119 ATPase, F0 complex, subunit A protein
Gorai.005G030200 2695818 - T T A . . . 3-UTR PF01564,PF08241 S-adenosyl-L-methionine-dependent methyltransferases superfamily protein
Gorai.005G030800 2750823 - G G A . . . 5-UTR PF05856 protein binding
Gorai.005G031000 2760819 + C C T . . . 5-UTR PF02892,PF02902,PF05699 BED zinc finger ;hAT family dimerisation domain
Gorai.005G031000 2761040 + A A C . . . 5-UTR PF02892,PF02902,PF05699 BED zinc finger ;hAT family dimerisation domain
Gorai.005G031000 2761073 + A A G . . . 5-UTR PF02892,PF02902,PF05699 BED zinc finger ;hAT family dimerisation domain
Gorai.005G031000 2761385 + C C A R R S CDS PF02892,PF02902,PF05699 BED zinc finger ;hAT family dimerisation domain
Gorai.005G031000 2761993 + G G C K K N CDS PF02892,PF02902,PF05699 BED zinc finger ;hAT family dimerisation domain
Gorai.005G031000 2761995 + C C G T T S CDS PF02892,PF02902,PF05699 BED zinc finger ;hAT family dimerisation domain
Gorai.005G031000 2762049 + A A G E E G CDS PF02892,PF02902,PF05699 BED zinc finger ;hAT family dimerisation domain
Gorai.005G031000 2768718 + A A G N N D CDS PF02892,PF02902,PF05699 BED zinc finger ;hAT family dimerisation domain
Gorai.005G031000 2768729 + A A T P P P CDS PF02892,PF02902,PF05699 BED zinc finger ;hAT family dimerisation domain
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BMC Genomics

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