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Table 4 Functional domains identified in predicted ORFs in the Alt region

From: Identification of candidate genes responsible for the susceptibility of apple (Malus × domestica Borkh.) to Alternaria blotch

BAC clone/genome Genea Functional domains (InterPro) InterPro ID Match position (aa)
SD-178_L15 A5 NPa
A6 RX-CC_like CD14798 10..98
Leucine-rich repeat domain superfamily IPR32675 106..563
F-box-like domain superfamily IPR001810 641..691
A7 NP
A8 RX-CC_like CD14798 33..136
P-loop containing nucleoside triphosphate hydrolase IPR027417 160..425
NB-ARC IPR002182 173..451
Winged helix-turn-helix DNA-binding domain superfamily IPR011991 405..487
Leucine-rich repeat domain superfamily IPR32675 487..1393
A9 Gag-polypeptide of LTR copia-type IPR029472 16..59
A10 RIN4, pathogenic type III effector avirulence factor Avr cleavage site IPR008700 12..47
SD-241_O01 a1 Gag-polypeptide of LTR copia-type IPR029472 30..70
a2 RX-CC_like CD14798 33..136
P-loop containing nucleoside triphosphate hydrolase IPR027417 161..425
NB-ARC IPR002182 173..451
Winged helix-turn-helix DNA-binding domain superfamily IPR011991 405..490
Leucine-rich repeat domain superfamily IPR032675 487..1393
a3 Gag-polypeptide of LTR copia-type IPR029472 16..59
a4 RIN4, pathogenic type III effector avirulence factor Avr cleavage site IPR008700 12..47
GDDH13 G4 RX-CC_like CD14798 123..249
P-loop containing nucleoside triphosphate hydrolase IPR027417 275..544
NB-ARC IPR002182 304..570
Winged helix-turn-helix DNA-binding domain superfamily IPR011991 524..608
Leucine-rich repeat domain superfamily IPR032675 985..1428
Receptor L-domain superfamily IPR036941 1310..1427
RIN4, pathogenic type III effector avirulence factor Avr cleavage site IPR008700 1439..1474
F-box-like domain superfamily IPR036047 1532..1586
F-box domain IPR001810 1530..1570
G5 Endonuclease/exonuclease/phosphatase superfamily IPR036691 110..358
SWR1-complex protein 5/craniofacial development protein IPR027124 112..406
Reverse transcriptase domain IPR000477 621..867
G6 NP
G7 NP
G8 NP
G9 NP
G10 NP
G11 NP
G12 Endonuclease/exonuclease/phosphatase superfamily IPR036691 94..300
SWR1-complex protein 5/craniofacial development protein IPR027124 57..78
SWR1-complex protein 5/craniofacial development protein IPR027124 97..298
G13 Gag-polypeptide of LTR copia-type IPR029472 30..70
GAG-pre-integrase domain IPR025724 268..328
G14 RX-CC_like CD14798 33..136
P-loop containing nucleoside triphosphate hydrolase IPR027417 161..425
NB-ARC IPR002182 173..451
Winged helix-turn-helix DNA-binding domain superfamily IPR011991 405..487
Leucine-rich repeat domain superfamily IPR032675 487..1393
G15 Gag-polypeptide of LTR copia-type IPR029472 16..59
G16 RIN4, pathogenic type III effector avirulence factor Avr cleavage site IPR008700 12..47
  1. aNP none predicted
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BMC Plant Biology

ISSN: 1471-2229

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