Rh7BG208200

a DNA repair protein and transcription factor. Arabidopsis thaliana has duplicated XPB gene (AtXPB1 and AtXPB2, with high similarity to each other). XPB proteins are involved in both DNA repair and transcription, they are component of the transcription factor IIH (TFIIH) and are responsible for DNA helicase activity during nucleotide (nt) excision repair (NER). Complementation assays in yeast rad25 mutant strains suggest the involvement of AtXPB2 in DNA repair. Although both genes are expressed in a constitutive manner during the plant life cycle, Northern blot analyses suggest that light modulates the expression level of both XPB copies

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr7B
OG0001033
Physical Location & Seq
Reverse (-)
17523676 .. 17524167
492 bp
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UTR
Exon/CDS
Intron
Rh7BG208200.1

Sequence Viewer

Length: 492 bp
ATGATTTATGGTGCCACCACGCAGGCTGAGACGACAAAAGTTCTACAAGAGTTCAAAACAAACCCGGACGTAAACACCGTATTCATGTCTAAGGTGGGTGATAACTCCTTGGACATTCCCGAGGCAAATGTGATCATTGAGATTTTATGGCACGGCGGTTCGAGACGACAAGAAGCGCAGCGTCTTGGTCGGATTCTAAGGGCCAAGAAAAGTAAAGAGAAGTACAATGCATTCTTCTATTCCCTTGTGTCATCGGATACACGGGAGATGGAATTTGCAGCTAAAAGGCAGCAGTTTTTGGTCGATCAAGGTTATAGTTATAAGATTGTTACAACCTTGCAATTGCCTAATTTTCCTCCACTTGGATCAGGAGCTTTGAGCTATGACAGTCTTCAAGATCAACGCGCACTACTCAAGAAAGTGTTGAGCTTTAATGAGGCTATAGTTGGGGCCGAAGATCCACTAGTAGAAGATGTAGATGGCATGCATTGA

Protein Analysis

163

Amino Acids

18.34

Weight (kDa)

5.73

Isoelectric Point (pI)

43.57

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
ERCC3_RAD25_C PF16203 1 - 151 1.5e-61 ERCC3/RAD25/XPB C-terminal helicase
Helicase_C PF00271 2 - 69 4.5e-09 Helicase conserved C-terminal domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 321
AccB1I GGYRCC 1 cut(s) 11
AccII CGCG 1 cut(s) 405
AciI CCGC 1 cut(s) 156
AclWI GGATC 2 cut(s) 373, 452
AcsI RAATTY 1 cut(s) 272
AfaI GTAC 1 cut(s) 224
AfiI CCNNNNNNNGG 1 cut(s) 362
AgsI TTSAA 2 cut(s) 55, 395
AhlI ACTAGT 1 cut(s) 463
AluBI AGCT 4 cut(s) 281, 374, 381, 429
AluI AGCT 4 cut(s) 281, 374, 381, 429
Alw26I GTCTC 2 cut(s) 23, 157
AlwI GGATC 2 cut(s) 373, 452
Ama87I CYCGRG 1 cut(s) 119
AoxI GGCC 2 cut(s) 201, 450
ApeKI GCWGC 3 cut(s) 178, 278, 289
ApoI RAATTY 1 cut(s) 272
AspLEI GCGC 2 cut(s) 178, 407
AspS9I GGNCC 2 cut(s) 201, 450
AsuC2I CCSGG 1 cut(s) 65
AsuHPI GGTGA 1 cut(s) 110
AvaI CYCGRG 1 cut(s) 119
BanI GGYRCC 1 cut(s) 11
BbsI GAAGAC 1 cut(s) 383
BbvI GCAGC 3 cut(s) 190, 290, 301
BccI CCATC 2 cut(s) 262, 473
BceAI ACGGC 1 cut(s) 169
BciVI GTATCC 1 cut(s) 250
BclI TGATCA 1 cut(s) 132
BcnI CCSGG 1 cut(s) 65
BcoDI GTCTC 2 cut(s) 23, 157
BcuI ACTAGT 1 cut(s) 463
BfaI CTAG 1 cut(s) 464
BfmI CTRYAG 1 cut(s) 441
BfuI GTATCC 1 cut(s) 250
BisI GCNGC 3 cut(s) 179, 279, 290
BlsI GCNGC 3 cut(s) 180, 280, 291
Bme1390I CCNGG 1 cut(s) 65
BmeT110I CYCGRG 1 cut(s) 119
BmgT120I GGNCC 2 cut(s) 201, 450
BmiI GGNNCC 2 cut(s) 13, 451
BmrFI CCNGG 1 cut(s) 65
BpiI GAAGAC 1 cut(s) 383
BpuEI CTTGAG 1 cut(s) 398
BpuMI CCSGG 1 cut(s) 65
BsaJI CCNNGG 2 cut(s) 108, 120
Bsc4I CCNNNNNNNGG 1 cut(s) 362
BseDI CCNNGG 2 cut(s) 108, 120
BseLI CCNNNNNNNGG 1 cut(s) 362
BseMII CTCAG 1 cut(s) 18
BseXI GCAGC 3 cut(s) 190, 290, 301
Bsh1236I CGCG 1 cut(s) 405
BshFI GGCC 2 cut(s) 203, 452
BshNI GGYRCC 1 cut(s) 11
BsiHKCI CYCGRG 1 cut(s) 119
BsiSI CCGG 1 cut(s) 65
BslI CCNNNNNNNGG 1 cut(s) 362
BsmAI GTCTC 2 cut(s) 23, 157
BsmBI CGTCTC 2 cut(s) 23, 157
BsmI GAATGC 1 cut(s) 230
BsnI GGCC 2 cut(s) 203, 452
BsoBI CYCGRG 1 cut(s) 119
Bsp143I GATC 5 cut(s) 132, 304, 365, 397, 457
BspACI CCGC 1 cut(s) 156
BspANI GGCC 2 cut(s) 203, 452
BspCNI CTCAG 1 cut(s) 19
BspFNI CGCG 1 cut(s) 405
BspLI GGNNCC 2 cut(s) 13, 451
BspPI GGATC 2 cut(s) 373, 452
BspT107I GGYRCC 1 cut(s) 11
BssECI CCNNGG 2 cut(s) 108, 120
BssMI GATC 5 cut(s) 132, 304, 365, 397, 457
BssT1I CCWWGG 1 cut(s) 108
Bst4CI ACNGT 2 cut(s) 79, 389
BstC8I GCNNGC 2 cut(s) 24, 485
BstDEI CTNAG 3 cut(s) 27, 90, 197
BstFNI CGCG 1 cut(s) 405
BstHHI GCGC 2 cut(s) 178, 407
BstKTI GATC 5 cut(s) 135, 307, 368, 400, 460
BstMAI GTCTC 2 cut(s) 23, 157
BstMBI GATC 5 cut(s) 132, 304, 365, 397, 457
BstNSI RCATGY 1 cut(s) 487
BstSCI CCNGG 1 cut(s) 63
BstSFI CTRYAG 1 cut(s) 441
BstUI CGCG 1 cut(s) 405
BstV1I GCAGC 3 cut(s) 190, 290, 301
BstV2I GAAGAC 1 cut(s) 383
BstX2I RGATCY 1 cut(s) 457
BstYI RGATCY 1 cut(s) 457
BsuI GTATCC 1 cut(s) 250
BsuRI GGCC 2 cut(s) 203, 452
Cac8I GCNNGC 2 cut(s) 24, 485
CfoI GCGC 2 cut(s) 178, 407
Cfr13I GGNCC 2 cut(s) 201, 450
CseI GACGC 1 cut(s) 170
Csp6I GTAC 1 cut(s) 223
CviAII CATG 2 cut(s) 85, 484
CviJI RGCY 8 cut(s) 26, 203, 281, 374, 381, 429, 440, 452
CviKI_1 RGCY 8 cut(s) 26, 203, 281, 374, 381, 429, 440, 452
CviQI GTAC 1 cut(s) 223
DdeI CTNAG 3 cut(s) 27, 90, 197
DpnI GATC 5 cut(s) 134, 306, 367, 399, 459
DpnII GATC 5 cut(s) 132, 304, 365, 397, 457
Eco130I CCWWGG 1 cut(s) 108
Eco88I CYCGRG 1 cut(s) 119
EcoT14I CCWWGG 1 cut(s) 108
EcoT22I ATGCAT 2 cut(s) 232, 489
ErhI CCWWGG 1 cut(s) 108
Esp3I CGTCTC 2 cut(s) 23, 157
FaeI CATG 2 cut(s) 88, 487
FaiI YATR 8 cut(s) 9, 86, 148, 315, 321, 384, 443, 485
FatI CATG 2 cut(s) 84, 483
FbaI TGATCA 1 cut(s) 132
Fnu4HI GCNGC 3 cut(s) 179, 279, 290
Fsp4HI GCNGC 3 cut(s) 179, 279, 290
FspBI CTAG 1 cut(s) 464
GlaI GCGC 2 cut(s) 177, 406
GluI GCNGC 3 cut(s) 179, 279, 290
HaeIII GGCC 2 cut(s) 203, 452
HapII CCGG 1 cut(s) 65
HgaI GACGC 1 cut(s) 170
HhaI GCGC 2 cut(s) 178, 407
Hin1II CATG 2 cut(s) 88, 487
Hin6I GCGC 2 cut(s) 176, 405
HinP1I GCGC 2 cut(s) 176, 405
HinfI GANTC 1 cut(s) 193
HpaII CCGG 1 cut(s) 65
HphI GGTGA 1 cut(s) 110
Hpy166II GTNNAC 1 cut(s) 73
Hpy188I TCNGA 2 cut(s) 192, 256
Hpy188III TCNNGA 5 cut(s) 119, 162, 369, 395, 415
Hpy8I GTNNAC 1 cut(s) 73
HpyCH4III ACNGT 2 cut(s) 79, 389
HpyCH4IV ACGT 1 cut(s) 69
HpyCH4V TGCA 4 cut(s) 230, 278, 340, 487
HpyF3I CTNAG 3 cut(s) 27, 90, 197
HpySE526I ACGT 1 cut(s) 69
Hsp92II CATG 2 cut(s) 88, 487
HspAI GCGC 2 cut(s) 176, 405
Ksp22I TGATCA 1 cut(s) 132
Kzo9I GATC 5 cut(s) 132, 304, 365, 397, 457
LmnI GCTCC 1 cut(s) 371
LpnPI CCDG 3 cut(s) 8, 78, 354
Lsp1109I GCAGC 3 cut(s) 190, 290, 301
MaeI CTAG 1 cut(s) 464
MaeII ACGT 1 cut(s) 69
MaeIII GTNAC 1 cut(s) 328
MalI GATC 5 cut(s) 134, 306, 367, 399, 459
MboI GATC 5 cut(s) 132, 304, 365, 397, 457
MboII GAAGA 4 cut(s) 226, 383, 467, 482
MfeI CAATTG 1 cut(s) 341
MflI RGATCY 1 cut(s) 457
MluCI AATT 3 cut(s) 272, 341, 349
MmeI TCCRAC 1 cut(s) 170
MnlI CCTC 3 cut(s) 115, 366, 430
Mph1103I ATGCAT 2 cut(s) 232, 489
MseI TTAA 1 cut(s) 432
MspI CCGG 1 cut(s) 65
MspR9I CCNGG 1 cut(s) 65
MunI CAATTG 1 cut(s) 341
Mva1269I GAATGC 1 cut(s) 230
MvnI CGCG 1 cut(s) 405
NciI CCSGG 1 cut(s) 65
NdeII GATC 5 cut(s) 132, 304, 365, 397, 457
NlaIII CATG 2 cut(s) 88, 487
NlaIV GGNNCC 2 cut(s) 13, 451
NsiI ATGCAT 2 cut(s) 232, 489
NspI RCATGY 1 cut(s) 487
PaeI GCATGC 1 cut(s) 487
PcsI WCGNNNNNNNCGW 1 cut(s) 75
PctI GAATGC 1 cut(s) 230
PfeI GAWTC 1 cut(s) 193
PkrI GCNGC 3 cut(s) 180, 280, 291
PsiI TTATAA 1 cut(s) 321
PspN4I GGNNCC 2 cut(s) 13, 451
PspPI GGNCC 2 cut(s) 201, 450
PsuI RGATCY 1 cut(s) 457
RsaI GTAC 1 cut(s) 224
RsaNI GTAC 1 cut(s) 223
SaqAI TTAA 1 cut(s) 432
SatI GCNGC 3 cut(s) 179, 279, 290
Sau3AI GATC 5 cut(s) 132, 304, 365, 397, 457
Sau96I GGNCC 2 cut(s) 201, 450
ScrFI CCNGG 1 cut(s) 65
SetI ASST 8 cut(s) 72, 96, 283, 313, 338, 376, 383, 431
SfcI CTRYAG 1 cut(s) 441
SmlI CTYRAG 1 cut(s) 413
SmoI CTYRAG 1 cut(s) 413
SpeI ACTAGT 1 cut(s) 463
SphI GCATGC 1 cut(s) 487
Sse9I AATT 3 cut(s) 272, 341, 349
SsiI CCGC 1 cut(s) 156
SspMI CTAG 1 cut(s) 464
StyD4I CCNGG 1 cut(s) 63
StyI CCWWGG 1 cut(s) 108
TaaI ACNGT 2 cut(s) 79, 389
TaiI ACGT 1 cut(s) 72
TaqI TCGA 2 cut(s) 161, 303
TasI AATT 3 cut(s) 272, 341, 349
TatI WGTACW 1 cut(s) 222
TfiI GAWTC 1 cut(s) 193
Tru1I TTAA 1 cut(s) 432
Tru9I TTAA 1 cut(s) 432
TseI GCWGC 3 cut(s) 178, 278, 289
TspDTI ATGAA 1 cut(s) 73
XapI RAATTY 1 cut(s) 272
XceI RCATGY 1 cut(s) 487
XspI CTAG 1 cut(s) 464
Zsp2I ATGCAT 2 cut(s) 232, 489
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.