Rroxscaffold_1G00068370

Component of the core-TFIIH basal transcription factor involved in nucleotide excision repair (NER) of DNA

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
Physical Location & Seq
Forward (+)
89579408 .. 89584418
5011 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00068370.1

Sequence Viewer

Length: 1362 bp
ATGCCTCAGGTGAGGATCATAGCGAAGAACTTCATGGACATGGTGGCTGCCTTGCCCGCCATGAAGCTCGATAAGCTCTACGACAACTCATTCATCTGCGAAGCCATTCTCAGGTCTCTGCCACCACTGGCCAAGAAATATGTTTTGCAAATGCTATGCGTCGAGCTTCCGGTCAATTCCAAGTCAATGGAGGAGTGGGTGCTGCCCGATGGGGCCTCCAAGCATCGAGTGGCGATTGATCGATTGGTTCAATTGAGAATATTCACCGAGACCAAGAAGAAGGGGGATGTTACATATACATTGAATCCTATATTTCAGACTAATCTCAAGAAGCTTCTGGTATATGGTGTAGTTTTGCCAAGAGAACCAATGCCTTCGAGTGTCACAGTGAGGCGTCCAAGCTCTGAGGAACTTGAGGCTTTTGCTCTAGAACAATGGGAGTGTTTCTTGCTGCAACTTATCAACTCATCTCAAACAGAAAGGCCGTCAAACATCAGTTCCTCTATGATGAAAACTTTCCAGCGGGGTCTTGTCACTCAAAGAGATAGAGAAGCTCCTAGGTTAACTGAAAGTGGTTTCCAGTTCTTGCTGATGGATACAAATGCACAACTTTGGTACATCATCAGAGAATATATCACTAGCTCCGAGGAGCGCGGGATCGATTCGGCAGATTTGATTTCATTCCTGCTAGAGCTAAGTTTTCATGTTACAGGCGAGGCATATAACATAAATACATTGACTGAGGTTCAGAAAAATACGATCAAGGACTTCACAGATTTGGGATTGGTCAAACTTCAGCAGGGTAGGAAAGAGAGTTGGTTTATACCTACTAAATTAGCTACTAATCTTTCGGTGAGCTTGACAGACACATCATCAAGGAAACAGGGATTTGTGGTTGTGGAAACAAACTTTAGGCTCTATGCATACTCATCATCAAAATTGCATTGTGAAATTTTGCGTCTTTTCGCAAGGATAGAATATCAACTTCCGAACCTTATAGTTGGAGCAATAACGAAAGAAAGTCTGTATGGTGCTTTTGACAATTGCATCACTGCGGAACAGATAATTTCTTTTCTTCAGCAAAATGCACATCCACGTGTTGCAGAGAGAATACCATCTGTACCTGAGAATGTCACGGATCAGATCAGGCTCTGGGAAACTGATTTAAACAGAGTTGAGATGACTACTGCATATTATTACGATGAATTTCCATCCAGGGATCTCTTTGACGGTGCTGTTGACTATGCTAGAAGCTACAATGGTTTGCTATGGGAGGCTCCAGATGATTCAAAAAAGATGCGTTTGGTGGTCCGGGCTGAAAACCACGTGCACATGCGAGAATATCTTTCCGGTCAAAAGTAG

Protein Analysis

453

Amino Acids

52.09

Weight (kDa)

6.17

Isoelectric Point (pI)

40.9

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Tfb2 PF03849 14 - 365 3.3e-114 Transcription factor Tfb2
Tfb2_C PF18307 380 - 449 2.9e-20 Transcription factor Tfb2 (p52) C-terminal domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 654
AciI CCGC 4 cut(s) 57, 523, 654, 1055
AclWI GGATC 4 cut(s) 23, 665, 1146, 1227
AcoI YGGCCR 1 cut(s) 129
AcsI RAATTY 2 cut(s) 951, 1205
AcuI CTGAAG 2 cut(s) 779, 1061
AcvI CACGTG 2 cut(s) 1097, 1327
AcyI GRCGYC 1 cut(s) 394
AfaI GTAC 2 cut(s) 617, 1122
AfiI CCNNNNNNNGG 1 cut(s) 111
AflIII ACRYGT 1 cut(s) 1096
AgsI TTSAA 3 cut(s) 251, 304, 1290
AjnI CCWGG 1 cut(s) 1214
Alw21I GWGCWC 1 cut(s) 1332
Alw26I GTCTC 2 cut(s) 120, 263
Alw44I GTGCAC 1 cut(s) 1328
AlwI GGATC 4 cut(s) 23, 665, 1146, 1227
AlwNI CAGNNNCTG 1 cut(s) 1152
AoxI GGCC 3 cut(s) 129, 213, 482
ApaLI GTGCAC 1 cut(s) 1328
ApeKI GCWGC 3 cut(s) 47, 202, 451
ApoI RAATTY 2 cut(s) 951, 1205
Asp700I GAANNNNTTC 3 cut(s) 29, 105, 515
AspA2I CCTAGG 1 cut(s) 557
AspLEI GCGC 1 cut(s) 654
AspS9I GGNCC 2 cut(s) 213, 1309
AsuC2I CCSGG 1 cut(s) 1313
AsuHPI GGTGA 3 cut(s) 22, 256, 865
AvaII GGWCC 1 cut(s) 1309
AvrII CCTAGG 1 cut(s) 557
AxyI CCTNAGG 1 cut(s) 6
BaeGI GKGCMC 1 cut(s) 1332
BalI TGGCCA 1 cut(s) 131
BbrPI CACGTG 2 cut(s) 1097, 1327
Bbv12I GWGCWC 1 cut(s) 1332
BbvI GCAGC 3 cut(s) 34, 189, 438
BccI CCATC 4 cut(s) 203, 586, 1123, 1219
BceAI ACGGC 1 cut(s) 469
BciT130I CCWGG 1 cut(s) 1216
BciVI GTATCC 1 cut(s) 589
BcnI CCSGG 1 cut(s) 1313
BcoDI GTCTC 2 cut(s) 120, 263
BfaI CTAG 5 cut(s) 428, 558, 639, 689, 1248
BfuI GTATCC 1 cut(s) 589
BisI GCNGC 3 cut(s) 48, 203, 452
BlnI CCTAGG 1 cut(s) 557
BlsI GCNGC 3 cut(s) 49, 204, 453
Bme1390I CCNGG 2 cut(s) 1216, 1313
Bme18I GGWCC 1 cut(s) 1309
BmgT120I GGNCC 2 cut(s) 213, 1309
BmiI GGNNCC 2 cut(s) 214, 1278
BmrFI CCNGG 2 cut(s) 1216, 1313
BmsI GCATC 3 cut(s) 232, 1056, 1287
BpmI CTGGAG 1 cut(s) 1263
BpuEI CTTGAG 2 cut(s) 311, 434
BpuMI CCSGG 1 cut(s) 1313
Bsa29I ATCGAT 2 cut(s) 241, 660
BsaAI YACGTR 2 cut(s) 1097, 1327
BsaHI GRCGYC 1 cut(s) 394
BsaI GGTCTC 2 cut(s) 120, 263
BsaJI CCNNGG 3 cut(s) 557, 645, 1215
BsaWI WCCGGW 2 cut(s) 169, 1349
Bsc4I CCNNNNNNNGG 1 cut(s) 111
Bse1I ACTGG 2 cut(s) 132, 580
Bse21I CCTNAGG 1 cut(s) 6
BseBI CCWGG 1 cut(s) 1216
BseCI ATCGAT 2 cut(s) 241, 660
BseDI CCNNGG 3 cut(s) 557, 645, 1215
BseGI GGATG 3 cut(s) 292, 1090, 1211
BseLI CCNNNNNNNGG 1 cut(s) 111
BseMII CTCAG 5 cut(s) 20, 124, 396, 732, 1116
BseNI ACTGG 2 cut(s) 132, 580
BseRI GAGGAG 2 cut(s) 206, 662
BseSI GKGCMC 1 cut(s) 1332
BseXI GCAGC 3 cut(s) 34, 189, 438
Bsh1236I CGCG 1 cut(s) 654
BshFI GGCC 3 cut(s) 131, 215, 484
BshVI ATCGAT 2 cut(s) 241, 660
BsiHKAI GWGCWC 1 cut(s) 1332
BsiSI CCGG 3 cut(s) 170, 1312, 1350
BslI CCNNNNNNNGG 1 cut(s) 111
BsmAI GTCTC 2 cut(s) 120, 263
BsnI GGCC 3 cut(s) 131, 215, 484
Bso31I GGTCTC 2 cut(s) 120, 263
Bsp1286I GDGCHC 1 cut(s) 1332
Bsp143I GATC 7 cut(s) 15, 238, 657, 759, 1138, 1143, 1219
BspACI CCGC 4 cut(s) 57, 523, 654, 1055
BspANI GGCC 3 cut(s) 131, 215, 484
BspCNI CTCAG 5 cut(s) 19, 123, 397, 733, 1117
BspDI ATCGAT 2 cut(s) 241, 660
BspFNI CGCG 1 cut(s) 654
BspLI GGNNCC 2 cut(s) 214, 1278
BspPI GGATC 4 cut(s) 23, 665, 1146, 1227
BspTNI GGTCTC 2 cut(s) 120, 263
BsrI ACTGG 2 cut(s) 132, 580
BssECI CCNNGG 3 cut(s) 557, 645, 1215
BssMI GATC 7 cut(s) 15, 238, 657, 759, 1138, 1143, 1219
BssNI GRCGYC 1 cut(s) 394
BssT1I CCWWGG 1 cut(s) 557
Bst2UI CCWGG 1 cut(s) 1216
Bst4CI ACNGT 2 cut(s) 388, 1232
BstACI GRCGYC 1 cut(s) 394
BstBAI YACGTR 2 cut(s) 1097, 1327
BstC8I GCNNGC 1 cut(s) 57
BstDEI CTNAG 6 cut(s) 6, 110, 405, 695, 741, 1125
BstF5I GGATG 3 cut(s) 292, 1090, 1211
BstFNI CGCG 1 cut(s) 654
BstHHI GCGC 1 cut(s) 654
BstKTI GATC 7 cut(s) 18, 241, 660, 762, 1141, 1146, 1222
BstMAI GTCTC 2 cut(s) 120, 263
BstMBI GATC 7 cut(s) 15, 238, 657, 759, 1138, 1143, 1219
BstMWI GCNNNNNNNGC 2 cut(s) 56, 73
BstNI CCWGG 1 cut(s) 1216
BstNSI RCATGY 1 cut(s) 1336
BstSCI CCNGG 2 cut(s) 1214, 1311
BstSLI GKGCMC 1 cut(s) 1332
BstUI CGCG 1 cut(s) 654
BstV1I GCAGC 3 cut(s) 34, 189, 438
BstX2I RGATCY 1 cut(s) 1219
BstXI CCANNNNNNTGG 1 cut(s) 187
BstYI RGATCY 1 cut(s) 1219
Bsu15I ATCGAT 2 cut(s) 241, 660
Bsu36I CCTNAGG 1 cut(s) 6
BsuI GTATCC 1 cut(s) 589
BsuRI GGCC 3 cut(s) 131, 215, 484
BsuTUI ATCGAT 2 cut(s) 241, 660
BtsCI GGATG 3 cut(s) 292, 1090, 1211
BtsI GCAGTG 1 cut(s) 1050
BtsIMutI CAGTG 3 cut(s) 125, 393, 1050
Cac8I GCNNGC 1 cut(s) 57
CaiI CAGNNNCTG 1 cut(s) 1152
CfoI GCGC 1 cut(s) 654
Cfr13I GGNCC 2 cut(s) 213, 1309
ClaI ATCGAT 2 cut(s) 241, 660
CseI GACGC 3 cut(s) 148, 383, 947
Csp6I GTAC 2 cut(s) 616, 1121
CviAII CATG 5 cut(s) 34, 40, 61, 704, 1333
CviQI GTAC 2 cut(s) 616, 1121
DdeI CTNAG 6 cut(s) 6, 110, 405, 695, 741, 1125
DpnI GATC 7 cut(s) 17, 240, 659, 761, 1140, 1145, 1221
DpnII GATC 7 cut(s) 15, 238, 657, 759, 1138, 1143, 1219
DraI TTTAAA 1 cut(s) 1167
EaeI YGGCCR 1 cut(s) 129
Eco130I CCWWGG 1 cut(s) 557
Eco31I GGTCTC 2 cut(s) 120, 263
Eco47I GGWCC 1 cut(s) 1309
Eco57I CTGAAG 2 cut(s) 779, 1061
Eco72I CACGTG 2 cut(s) 1097, 1327
Eco81I CCTNAGG 1 cut(s) 6
EcoO109I RGGNCCY 1 cut(s) 213
EcoRII CCWGG 1 cut(s) 1214
EcoT14I CCWWGG 1 cut(s) 557
EcoT22I ATGCAT 1 cut(s) 925
ErhI CCWWGG 1 cut(s) 557
FaeI CATG 5 cut(s) 37, 43, 64, 707, 1336
FatI CATG 5 cut(s) 33, 39, 60, 703, 1332
FauI CCCGC 3 cut(s) 64, 516, 647
Fnu4HI GCNGC 3 cut(s) 48, 203, 452
FokI GGATG 3 cut(s) 299, 1077, 1198
Fsp4HI GCNGC 3 cut(s) 48, 203, 452
FspBI CTAG 5 cut(s) 428, 558, 639, 689, 1248
GlaI GCGC 1 cut(s) 653
GluI GCNGC 3 cut(s) 48, 203, 452
GsuI CTGGAG 1 cut(s) 1263
HaeIII GGCC 3 cut(s) 131, 215, 484
HapII CCGG 3 cut(s) 170, 1312, 1350
HgaI GACGC 3 cut(s) 148, 383, 947
HhaI GCGC 1 cut(s) 654
Hin1I GRCGYC 1 cut(s) 394
Hin1II CATG 5 cut(s) 37, 43, 64, 707, 1336
Hin6I GCGC 1 cut(s) 652
HinP1I GCGC 1 cut(s) 652
HincII GTYRAC 2 cut(s) 564, 1240
HindII GTYRAC 2 cut(s) 564, 1240
HindIII AAGCTT 1 cut(s) 332
HinfI GANTC 3 cut(s) 304, 662, 1286
HpaI GTTAAC 1 cut(s) 564
HpaII CCGG 3 cut(s) 170, 1312, 1350
HphI GGTGA 3 cut(s) 22, 256, 865
Hpy166II GTNNAC 3 cut(s) 564, 1240, 1330
Hpy188I TCNGA 7 cut(s) 318, 406, 626, 646, 750, 990, 1143
Hpy188III TCNNGA 3 cut(s) 328, 428, 1280
Hpy8I GTNNAC 3 cut(s) 564, 1240, 1330
Hpy99I CGWCG 1 cut(s) 164
HpyAV CCTTC 2 cut(s) 274, 384
HpyCH4III ACNGT 2 cut(s) 388, 1232
HpyCH4IV ACGT 2 cut(s) 1096, 1326
HpyF10VI GCNNNNNNNGC 2 cut(s) 56, 73
HpyF3I CTNAG 6 cut(s) 6, 110, 405, 695, 741, 1125
HpySE526I ACGT 2 cut(s) 1096, 1326
Hsp92I GRCGYC 1 cut(s) 394
Hsp92II CATG 5 cut(s) 37, 43, 64, 707, 1336
HspAI GCGC 1 cut(s) 652
KspAI GTTAAC 1 cut(s) 564
Kzo9I GATC 7 cut(s) 15, 238, 657, 759, 1138, 1143, 1219
LmnI GCTCC 5 cut(s) 559, 647, 649, 1004, 1282
Lsp1109I GCAGC 3 cut(s) 34, 189, 438
LweI GCATC 3 cut(s) 232, 1056, 1287
MaeI CTAG 5 cut(s) 428, 558, 639, 689, 1248
MaeII ACGT 2 cut(s) 1096, 1326
MaeIII GTNAC 5 cut(s) 289, 382, 532, 706, 1132
MalI GATC 7 cut(s) 17, 240, 659, 761, 1140, 1145, 1221
MboI GATC 7 cut(s) 15, 238, 657, 759, 1138, 1143, 1219
MboII GAAGA 3 cut(s) 37, 289, 1067
MfeI CAATTG 2 cut(s) 251, 1042
MflI RGATCY 1 cut(s) 1219
MhlI GDGCHC 1 cut(s) 1332
MlsI TGGCCA 1 cut(s) 131
MluCI AATT 8 cut(s) 175, 251, 833, 938, 951, 1042, 1065, 1205
MluNI TGGCCA 1 cut(s) 131
MmeI TCCRAC 1 cut(s) 982
Mox20I TGGCCA 1 cut(s) 131
Mph1103I ATGCAT 1 cut(s) 925
MroXI GAANNNNTTC 3 cut(s) 29, 105, 515
MscI TGGCCA 1 cut(s) 131
MseI TTAA 2 cut(s) 563, 1166
MslI CAYNNNNRTG 2 cut(s) 38, 1095
Msp20I TGGCCA 1 cut(s) 131
MspA1I CMGCKG 1 cut(s) 523
MspI CCGG 3 cut(s) 170, 1312, 1350
MspR9I CCNGG 2 cut(s) 1216, 1313
MunI CAATTG 2 cut(s) 251, 1042
MvaI CCWGG 1 cut(s) 1216
MvnI CGCG 1 cut(s) 654
MwoI GCNNNNNNNGC 2 cut(s) 56, 73
NciI CCSGG 1 cut(s) 1313
NdeII GATC 7 cut(s) 15, 238, 657, 759, 1138, 1143, 1219
NlaIII CATG 5 cut(s) 37, 43, 64, 707, 1336
NlaIV GGNNCC 2 cut(s) 214, 1278
NmuCI GTSAC 3 cut(s) 382, 532, 1132
NsiI ATGCAT 1 cut(s) 925
NspI RCATGY 1 cut(s) 1336
PdmI GAANNNNTTC 3 cut(s) 29, 105, 515
PfeI GAWTC 3 cut(s) 304, 662, 1286
PkrI GCNGC 3 cut(s) 49, 204, 453
PmaCI CACGTG 2 cut(s) 1097, 1327
PmlI CACGTG 2 cut(s) 1097, 1327
Ppu21I YACGTR 2 cut(s) 1097, 1327
Psp6I CCWGG 1 cut(s) 1214
PspCI CACGTG 2 cut(s) 1097, 1327
PspGI CCWGG 1 cut(s) 1214
PspN4I GGNNCC 2 cut(s) 214, 1278
PspPI GGNCC 2 cut(s) 213, 1309
PstNI CAGNNNCTG 1 cut(s) 1152
PsuI RGATCY 1 cut(s) 1219
RsaI GTAC 2 cut(s) 617, 1122
RsaNI GTAC 2 cut(s) 616, 1121
RseI CAYNNNNRTG 2 cut(s) 38, 1095
SaqAI TTAA 2 cut(s) 563, 1166
SatI GCNGC 3 cut(s) 48, 203, 452
Sau3AI GATC 7 cut(s) 15, 238, 657, 759, 1138, 1143, 1219
Sau96I GGNCC 2 cut(s) 213, 1309
ScrFI CCNGG 2 cut(s) 1216, 1313
SduI GDGCHC 1 cut(s) 1332
SfaNI GCATC 3 cut(s) 232, 1056, 1287
SinI GGWCC 1 cut(s) 1309
SmiMI CAYNNNNRTG 2 cut(s) 38, 1095
SmlI CTYRAG 2 cut(s) 326, 413
SmoI CTYRAG 2 cut(s) 326, 413
Sse9I AATT 8 cut(s) 175, 251, 833, 938, 951, 1042, 1065, 1205
SsiI CCGC 4 cut(s) 57, 523, 654, 1055
SspI AATATT 1 cut(s) 261
SspMI CTAG 5 cut(s) 428, 558, 639, 689, 1248
StyD4I CCNGG 2 cut(s) 1214, 1311
StyI CCWWGG 1 cut(s) 557
TaaI ACNGT 2 cut(s) 388, 1232
TaiI ACGT 2 cut(s) 1099, 1329
TaqI TCGA 6 cut(s) 69, 162, 226, 241, 377, 660
TasI AATT 8 cut(s) 175, 251, 833, 938, 951, 1042, 1065, 1205
TfiI GAWTC 3 cut(s) 304, 662, 1286
Tru1I TTAA 2 cut(s) 563, 1166
Tru9I TTAA 2 cut(s) 563, 1166
TscAI CASTG 3 cut(s) 132, 393, 1057
TseFI GTSAC 3 cut(s) 382, 532, 1132
TseI GCWGC 3 cut(s) 47, 202, 451
Tsp45I GTSAC 3 cut(s) 382, 532, 1132
TspDTI ATGAA 7 cut(s) 22, 77, 82, 524, 669, 692, 1218
TspGWI ACGGA 1 cut(s) 1151
TspRI CASTG 3 cut(s) 132, 393, 1057
VneI GTGCAC 1 cut(s) 1328
VpaK11BI GGWCC 1 cut(s) 1309
XapI RAATTY 2 cut(s) 951, 1205
XbaI TCTAGA 1 cut(s) 427
XceI RCATGY 1 cut(s) 1336
XcmI CCANNNNNNNNNTGG 1 cut(s) 226
XmaJI CCTAGG 1 cut(s) 557
XmnI GAANNNNTTC 3 cut(s) 29, 105, 515
XspI CTAG 5 cut(s) 428, 558, 639, 689, 1248
Zsp2I ATGCAT 1 cut(s) 925
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.