MD10G1295600.v1.1

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

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr10
Physical Location & Seq
Forward (+)
38386826 .. 38392207
5382 bp
Loading structure...
UTR
Exon/CDS
Intron
MD10G1295600.v1.1.491

Sequence Viewer

Length: 1452 bp
ATGCCTCAGGTGAGGATCATAGCGAAGAATTTCATGGACATGGTGGCCACCCTGCCCGCCATGAAGCTCGACAAGCTCTACGAAAATGCTTTCGTCTGCGAAGCAATTCTCAGGTCACTGCCACCGCTAGCCAAGAAATACGTCTTGCAAATGCTATCCATTGAAGTTCCGGTGACTGCCAAGTCAATGGAGGAGTGGGTGCTTCCTGATGGGGTCTCAAAGCATAGAGTTGCAATTGATCGCCTGATTCAATTGAGAATATTTACAGAAACTGTGGACAGGAAGAGGGAAGCAACTTACACCGTAAATCCTATATTTCAGACTAATCTCAAGAAGCTTTTGGTACATGGTGTAGTTTTGCCAAGAGAACCAATGCCTTCAAATATCACAGTGAGGCTCCCTAGCTTGGAGGATCTTGAAGCTTTTGCCCTAGAACAATGGGAGTGTTTCTTGCTGCAACTTATCAACTCATCTCAAATTGAAAGGCCATCGAACATCAGTTCGTCTATGATGAAAACTTTCCAGCGAGGTCTTTTGTGTCAAAGGGATAGAGAAGCTCCGAGATTAACTGAAAGTGGTTTCCAGTTCTTGTTGATAGATACAAATGCGCAACTATGGTACATCATTAGAGAGTATATCTCTAACTCGGAGGAGCGTGGGTTAGATTCTGCAGATTTGATTTCATTCCTGCTAGAACTTAGTTTTCATGTTACAGGCGAGGCATATAACATAAATACATTGAATGAGAGGCAGAAGAATATAGTCAAGCATCTTGCAGATTTGGGGCTGATCAAACTTCAGCAGGGAAGGAAAGACAGTTGGTTTATACCTACTAAATTAGCTACTAATCTTTCAGTTAGCTTGACAGACTCATCATCGAGGAAACAGGGATTTGTTGTTGTAGAAACAAACTTCAGACTCTATGCCTACTCAACATCTAACTTACATTGTGAAATTTTACGTCTTTTCTCAAGTTTCTGGTCAGGCTGGACCTTTCCGTTATTAAGGGGGAGAGGTAGCATTTGGCTGCAATGGGCGGTGTCGTTGTTTTGGTTGTGTTGGGTAGAATATCAACTTCCAAACCTTATTGTTGGAGCAATAACAAAAGAAAGTTTGTATAGTGCTTTTGAAAATGGCATTACTGCAGATCAGATAATTTCTTTTCTTCAGCAAAATGCACATCCACGTGTTGCAGAGAGAGTACCATCTGTACCTGAGAATGTCACAGATCAGATTAGGCTGTGGGAAACAGATCTGAATAGGGTTGAGATGACTCTAGCTTATTATTACGATGAATTTCCAACCAGGGATCTCCTTGAGGGTACTTCTGACTTCGCGCGAGGCTATAATGCTTTGCTATGGGAGGAGCCAGATTCGAAAAAGATGCGTTTAGTGGTCAAGGCAGAAAACCACACGCACATGAAAGAATATCTTAGCCGTCAAAGACAATAG

Protein Analysis

484

Amino Acids

55.93

Weight (kDa)

6.5

Isoelectric Point (pI)

40.69

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Tfb2 PF03849 14 - 325 2.1e-91 Transcription factor Tfb2
Tfb2 PF03849 353 - 395 2.7e-15 Transcription factor Tfb2
Tfb2_C PF18307 410 - 478 1.3e-18 Transcription factor Tfb2 (p52) C-terminal domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 181
Acc16I TGCGCA 1 cut(s) 609
AccII CGCG 2 cut(s) 1337, 1339
AciI CCGC 3 cut(s) 57, 125, 1037
AclWI GGATC 3 cut(s) 23, 420, 1317
AcoI YGGCCR 1 cut(s) 45
AcsI RAATTY 3 cut(s) 28, 954, 1295
AcuI CTGAAG 3 cut(s) 782, 898, 1151
AcvI CACGTG 1 cut(s) 1187
AfaI GTAC 5 cut(s) 345, 620, 1203, 1212, 1324
AfiI CCNNNNNNNGG 1 cut(s) 406
AflIII ACRYGT 1 cut(s) 1186
AgsI TTSAA 7 cut(s) 164, 251, 381, 419, 482, 742, 1130
AjnI CCWGG 1 cut(s) 1304
AluBI AGCT 9 cut(s) 67, 76, 337, 405, 422, 557, 842, 861, 1280
AluI AGCT 9 cut(s) 67, 76, 337, 405, 422, 557, 842, 861, 1280
Alw26I GTCTC 1 cut(s) 220
AlwI GGATC 3 cut(s) 23, 420, 1317
AlwNI CAGNNNCTG 1 cut(s) 272
AoxI GGCC 2 cut(s) 45, 485
ApeKI GCWGC 2 cut(s) 454, 1027
ApoI RAATTY 3 cut(s) 28, 954, 1295
Asp700I GAANNNNTTC 3 cut(s) 29, 105, 518
AspLEI GCGC 2 cut(s) 610, 1339
AspS9I GGNCC 1 cut(s) 990
AsuHPI GGTGA 2 cut(s) 22, 184
AsuII TTCGAA 1 cut(s) 1376
AsuNHI GCTAGC 1 cut(s) 127
AvaII GGWCC 1 cut(s) 990
AxyI CCTNAGG 1 cut(s) 6
BalI TGGCCA 1 cut(s) 47
BbrPI CACGTG 1 cut(s) 1187
BbvI GCAGC 2 cut(s) 441, 1014
BccI CCATC 3 cut(s) 203, 496, 1213
BceAI ACGGC 1 cut(s) 1422
BcgI CGANNNNNNTGC 2 cut(s) 1366, 1400
BciT130I CCWGG 1 cut(s) 1306
BclI TGATCA 1 cut(s) 789
BcoDI GTCTC 1 cut(s) 220
BfaI CTAG 5 cut(s) 128, 402, 431, 692, 1277
BfmI CTRYAG 2 cut(s) 669, 1143
BglII AGATCT 1 cut(s) 1252
BisI GCNGC 2 cut(s) 455, 1028
BlsI GCNGC 2 cut(s) 456, 1029
Bme1390I CCNGG 1 cut(s) 1306
Bme18I GGWCC 1 cut(s) 990
BmgT120I GGNCC 1 cut(s) 990
BmiI GGNNCC 2 cut(s) 398, 1368
BmrFI CCNGG 1 cut(s) 1306
BmsI GCATC 2 cut(s) 778, 1374
BmtI GCTAGC 1 cut(s) 131
BplI GAGNNNNNCTC 2 cut(s) 623, 655
Bpu14I TTCGAA 1 cut(s) 1376
BpuEI CTTGAG 3 cut(s) 314, 955, 1337
BsaAI YACGTR 1 cut(s) 1187
BsaI GGTCTC 1 cut(s) 220
BsaJI CCNNGG 1 cut(s) 1305
BsaWI WCCGGW 1 cut(s) 169
BsaXI ACNNNNNCTCC 2 cut(s) 644, 674
Bsc4I CCNNNNNNNGG 1 cut(s) 406
Bse1I ACTGG 1 cut(s) 583
Bse21I CCTNAGG 1 cut(s) 6
Bse3DI GCAATG 1 cut(s) 1037
BseBI CCWGG 1 cut(s) 1306
BseDI CCNNGG 1 cut(s) 1305
BseGI GGATG 1 cut(s) 1180
BseLI CCNNNNNNNGG 1 cut(s) 406
BseMI GCAATG 1 cut(s) 1037
BseMII CTCAG 3 cut(s) 20, 124, 1206
BseNI ACTGG 1 cut(s) 583
BseRI GAGGAG 3 cut(s) 206, 665, 1379
BseXI GCAGC 2 cut(s) 441, 1014
Bsh1236I CGCG 2 cut(s) 1337, 1339
BshFI GGCC 2 cut(s) 47, 487
BsiSI CCGG 1 cut(s) 170
BslI CCNNNNNNNGG 1 cut(s) 406
BsmAI GTCTC 1 cut(s) 220
BsnI GGCC 2 cut(s) 47, 487
Bso31I GGTCTC 1 cut(s) 220
Bsp119I TTCGAA 1 cut(s) 1376
Bsp143I GATC 8 cut(s) 15, 238, 412, 789, 1147, 1228, 1252, 1309
BspACI CCGC 3 cut(s) 57, 125, 1037
BspANI GGCC 2 cut(s) 47, 487
BspCNI CTCAG 3 cut(s) 19, 123, 1207
BspFNI CGCG 2 cut(s) 1337, 1339
BspLI GGNNCC 2 cut(s) 398, 1368
BspMAI CTGCAG 2 cut(s) 673, 1147
BspOI GCTAGC 1 cut(s) 131
BspPI GGATC 3 cut(s) 23, 420, 1317
BspT104I TTCGAA 1 cut(s) 1376
BspTNI GGTCTC 1 cut(s) 220
BsrDI GCAATG 1 cut(s) 1037
BsrI ACTGG 1 cut(s) 583
BssECI CCNNGG 1 cut(s) 1305
BssMI GATC 8 cut(s) 15, 238, 412, 789, 1147, 1228, 1252, 1309
Bst2UI CCWGG 1 cut(s) 1306
Bst4CI ACNGT 4 cut(s) 274, 304, 391, 818
Bst6I CTCTTC 1 cut(s) 278
BstBAI YACGTR 1 cut(s) 1187
BstBI TTCGAA 1 cut(s) 1376
BstC8I GCNNGC 2 cut(s) 57, 129
BstDEI CTNAG 5 cut(s) 6, 110, 698, 1215, 1433
BstF5I GGATG 1 cut(s) 1180
BstFNI CGCG 2 cut(s) 1337, 1339
BstHHI GCGC 2 cut(s) 610, 1339
BstKTI GATC 8 cut(s) 18, 241, 415, 792, 1150, 1231, 1255, 1312
BstMAI GTCTC 1 cut(s) 220
BstMBI GATC 8 cut(s) 15, 238, 412, 789, 1147, 1228, 1252, 1309
BstMWI GCNNNNNNNGC 1 cut(s) 73
BstNI CCWGG 1 cut(s) 1306
BstSCI CCNGG 1 cut(s) 1304
BstSFI CTRYAG 2 cut(s) 669, 1143
BstUI CGCG 2 cut(s) 1337, 1339
BstV1I GCAGC 2 cut(s) 441, 1014
BstX2I RGATCY 3 cut(s) 412, 1252, 1309
BstXI CCANNNNNNTGG 1 cut(s) 187
BstYI RGATCY 3 cut(s) 412, 1252, 1309
Bsu36I CCTNAGG 1 cut(s) 6
BsuRI GGCC 2 cut(s) 47, 487
BtsCI GGATG 1 cut(s) 1180
BtsI GCAGTG 1 cut(s) 116
BtsIMutI CAGTG 2 cut(s) 116, 396
Cac8I GCNNGC 2 cut(s) 57, 129
CaiI CAGNNNCTG 1 cut(s) 272
CfoI GCGC 2 cut(s) 610, 1339
Cfr13I GGNCC 1 cut(s) 990
Csp6I GTAC 5 cut(s) 344, 619, 1202, 1211, 1323
CviAII CATG 6 cut(s) 34, 40, 61, 347, 707, 1420
CviQI GTAC 5 cut(s) 344, 619, 1202, 1211, 1323
DdeI CTNAG 5 cut(s) 6, 110, 698, 1215, 1433
DpnI GATC 8 cut(s) 17, 240, 414, 791, 1149, 1230, 1254, 1311
DpnII GATC 8 cut(s) 15, 238, 412, 789, 1147, 1228, 1252, 1309
DrdI GACNNNNNNGTC 1 cut(s) 181
DseDI GACNNNNNNGTC 1 cut(s) 181
EaeI YGGCCR 1 cut(s) 45
Eam1104I CTCTTC 1 cut(s) 278
EarI CTCTTC 1 cut(s) 278
Eco31I GGTCTC 1 cut(s) 220
Eco47I GGWCC 1 cut(s) 990
Eco57I CTGAAG 3 cut(s) 782, 898, 1151
Eco72I CACGTG 1 cut(s) 1187
Eco81I CCTNAGG 1 cut(s) 6
EcoRII CCWGG 1 cut(s) 1304
FaeI CATG 6 cut(s) 37, 43, 64, 350, 710, 1423
FalI AAGNNNNNCTT 2 cut(s) 1416, 1448
FatI CATG 6 cut(s) 33, 39, 60, 346, 706, 1419
FauI CCCGC 1 cut(s) 64
FbaI TGATCA 1 cut(s) 789
Fnu4HI GCNGC 2 cut(s) 455, 1028
FokI GGATG 1 cut(s) 1167
Fsp4HI GCNGC 2 cut(s) 455, 1028
FspBI CTAG 5 cut(s) 128, 402, 431, 692, 1277
FspI TGCGCA 1 cut(s) 609
GlaI GCGC 2 cut(s) 609, 1338
GluI GCNGC 2 cut(s) 455, 1028
HaeIII GGCC 2 cut(s) 47, 487
HapII CCGG 1 cut(s) 170
HhaI GCGC 2 cut(s) 610, 1339
Hin1II CATG 6 cut(s) 37, 43, 64, 350, 710, 1423
Hin6I GCGC 2 cut(s) 608, 1337
HinP1I GCGC 2 cut(s) 608, 1337
HindIII AAGCTT 2 cut(s) 335, 420
HinfI GANTC 6 cut(s) 247, 665, 869, 918, 1273, 1373
HpaII CCGG 1 cut(s) 170
HphI GGTGA 2 cut(s) 22, 184
Hpy166II GTNNAC 1 cut(s) 277
Hpy188I TCNGA 8 cut(s) 321, 561, 649, 917, 1152, 1233, 1257, 1330
Hpy188III TCNNGA 3 cut(s) 206, 331, 416
Hpy8I GTNNAC 1 cut(s) 277
HpyAV CCTTC 2 cut(s) 387, 801
HpyCH4III ACNGT 4 cut(s) 274, 304, 391, 818
HpyCH4IV ACGT 3 cut(s) 141, 961, 1186
HpyCH4V TGCA 9 cut(s) 148, 233, 457, 671, 776, 1030, 1145, 1178, 1193
HpyF10VI GCNNNNNNNGC 1 cut(s) 73
HpyF3I CTNAG 5 cut(s) 6, 110, 698, 1215, 1433
HpySE526I ACGT 3 cut(s) 141, 961, 1186
Hsp92II CATG 6 cut(s) 37, 43, 64, 350, 710, 1423
HspAI GCGC 2 cut(s) 608, 1337
Ksp22I TGATCA 1 cut(s) 789
Kzo9I GATC 8 cut(s) 15, 238, 412, 789, 1147, 1228, 1252, 1309
LmnI GCTCC 5 cut(s) 402, 562, 652, 1094, 1366
Lsp1109I GCAGC 2 cut(s) 441, 1014
LweI GCATC 2 cut(s) 778, 1374
MaeI CTAG 5 cut(s) 128, 402, 431, 692, 1277
MaeII ACGT 3 cut(s) 141, 961, 1186
MaeIII GTNAC 4 cut(s) 114, 172, 709, 1222
MalI GATC 8 cut(s) 17, 240, 414, 791, 1149, 1230, 1254, 1311
MboI GATC 8 cut(s) 15, 238, 412, 789, 1147, 1228, 1252, 1309
MboII GAAGA 4 cut(s) 37, 295, 766, 1157
MfeI CAATTG 2 cut(s) 234, 251
MflI RGATCY 3 cut(s) 412, 1252, 1309
MlsI TGGCCA 1 cut(s) 47
MluCI AATT 9 cut(s) 28, 105, 234, 251, 477, 836, 954, 1155, 1295
MluNI TGGCCA 1 cut(s) 47
MlyI GAGTC 3 cut(s) 863, 912, 1267
MmeI TCCRAC 2 cut(s) 1072, 1325
Mox20I TGGCCA 1 cut(s) 47
MroXI GAANNNNTTC 3 cut(s) 29, 105, 518
MscI TGGCCA 1 cut(s) 47
MseI TTAA 2 cut(s) 566, 1004
MslI CAYNNNNRTG 3 cut(s) 38, 1185, 1418
Msp20I TGGCCA 1 cut(s) 47
MspI CCGG 1 cut(s) 170
MspR9I CCNGG 1 cut(s) 1306
MunI CAATTG 2 cut(s) 234, 251
MvaI CCWGG 1 cut(s) 1306
MvnI CGCG 2 cut(s) 1337, 1339
MwoI GCNNNNNNNGC 1 cut(s) 73
NdeII GATC 8 cut(s) 15, 238, 412, 789, 1147, 1228, 1252, 1309
NheI GCTAGC 1 cut(s) 127
NlaIII CATG 6 cut(s) 37, 43, 64, 350, 710, 1423
NlaIV GGNNCC 2 cut(s) 398, 1368
NmuCI GTSAC 3 cut(s) 114, 172, 1222
NsbI TGCGCA 1 cut(s) 609
NspV TTCGAA 1 cut(s) 1376
PdmI GAANNNNTTC 3 cut(s) 29, 105, 518
PfeI GAWTC 3 cut(s) 247, 665, 1373
PkrI GCNGC 2 cut(s) 456, 1029
PleI GAGTC 3 cut(s) 863, 912, 1267
PmaCI CACGTG 1 cut(s) 1187
PmlI CACGTG 1 cut(s) 1187
PpsI GAGTC 3 cut(s) 863, 912, 1267
Ppu21I YACGTR 1 cut(s) 1187
Psp6I CCWGG 1 cut(s) 1304
PspCI CACGTG 1 cut(s) 1187
PspGI CCWGG 1 cut(s) 1304
PspN4I GGNNCC 2 cut(s) 398, 1368
PspPI GGNCC 1 cut(s) 990
PstI CTGCAG 2 cut(s) 673, 1147
PstNI CAGNNNCTG 1 cut(s) 272
PsuI RGATCY 3 cut(s) 412, 1252, 1309
RsaI GTAC 5 cut(s) 345, 620, 1203, 1212, 1324
RsaNI GTAC 5 cut(s) 344, 619, 1202, 1211, 1323
RseI CAYNNNNRTG 3 cut(s) 38, 1185, 1418
SaqAI TTAA 2 cut(s) 566, 1004
SatI GCNGC 2 cut(s) 455, 1028
Sau3AI GATC 8 cut(s) 15, 238, 412, 789, 1147, 1228, 1252, 1309
Sau96I GGNCC 1 cut(s) 990
SchI GAGTC 3 cut(s) 863, 912, 1267
ScrFI CCNGG 1 cut(s) 1306
SfaNI GCATC 2 cut(s) 778, 1374
SfcI CTRYAG 2 cut(s) 669, 1143
SfuI TTCGAA 1 cut(s) 1376
SinI GGWCC 1 cut(s) 990
SmiMI CAYNNNNRTG 3 cut(s) 38, 1185, 1418
SmlI CTYRAG 3 cut(s) 329, 970, 1316
SmoI CTYRAG 3 cut(s) 329, 970, 1316
Sse9I AATT 9 cut(s) 28, 105, 234, 251, 477, 836, 954, 1155, 1295
SsiI CCGC 3 cut(s) 57, 125, 1037
SspI AATATT 1 cut(s) 261
SspMI CTAG 5 cut(s) 128, 402, 431, 692, 1277
StyD4I CCNGG 1 cut(s) 1304
TaaI ACNGT 4 cut(s) 274, 304, 391, 818
TaiI ACGT 3 cut(s) 144, 964, 1189
TaqI TCGA 4 cut(s) 69, 491, 878, 1376
TasI AATT 9 cut(s) 28, 105, 234, 251, 477, 836, 954, 1155, 1295
TfiI GAWTC 3 cut(s) 247, 665, 1373
Tru1I TTAA 2 cut(s) 566, 1004
Tru9I TTAA 2 cut(s) 566, 1004
TscAI CASTG 2 cut(s) 123, 396
TseFI GTSAC 3 cut(s) 114, 172, 1222
TseI GCWGC 2 cut(s) 454, 1027
Tsp45I GTSAC 3 cut(s) 114, 172, 1222
TspDTI ATGAA 7 cut(s) 22, 77, 527, 672, 695, 1308, 1436
TspGWI ACGGA 1 cut(s) 987
TspRI CASTG 2 cut(s) 123, 396
VpaK11BI GGWCC 1 cut(s) 990
XapI RAATTY 3 cut(s) 28, 954, 1295
XmnI GAANNNNTTC 3 cut(s) 29, 105, 518
XspI CTAG 5 cut(s) 128, 402, 431, 692, 1277
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.