MD05G1314300.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
Chr05
Physical Location & Seq
Forward (+)
44445204 .. 44450896
5693 bp
Loading structure...
UTR
Exon/CDS
Intron
MD05G1314300.v1.1.491

Sequence Viewer

Length: 1365 bp
ATGCCTCAGGTGAGGATCATCGCGAAGAATTTCATGGACATGGTGGCCGCCCTGCCCGCCATGAAGCTCGACAAGCTATACGAGAATGCATTCATCTGCGAAGCAATTCTCAGGTCTCTGCCACCGTTGGCTAAGAAATATGTCTTGCAACTGTTGTGCATTGAAGTTCCGGTGACTGCCAAGTCAATGGAGGAGTGGGTGCTTCCTGATGGGGTCTCGAAGCATAGAGTTGCAATTGATCGGCTGATTCAATTGAGAATATTTACTGAAACTGTGGACAGGAAGAGGGAAACAACCTACACACTAAATCCTATATTTCAGACTAATCTCAAGAAGCTTCTGGTACACGGTGTAGTTTTGCCGAGAGAACCAATGCCTTCAAATATCACAGTGAGGCTCCCAAGCTTGGAGGATCTTCAGGCTTTTGCCCTAGAACAATGGGAGTGTTTCTTGCTGCAACTTATCAACTCATCTCAAAGTGAGAGGCCATCGAACATCAGTTCGTCTATGATGAAAACTTTCCAGCGGGGTCTTTTGAGTCAAAGGGATAGAGAAGCTCCAAGATTAACTGACAGTGGTTTCCAGTTCTTGTTGATGGATACAAACGCGCAACTCTGGTACATCATCAGAGAGTACATCTCTAACTCGGAGGAGCGTGGGCTAGATTCTGCAGATTTGATTTCTTTCCTGCTAGAACTTAGTTTTCATGTTACAGGCGAGGCATATAACATAAATACATTGAATGAGAGGCAGAAGAATATAATCAAGGATCTTGCAGATTTGGGACTGATCAAACTTCAGCAGGGAAGGAAAGACAGTTGGTTTATACCTACTGAATTAGCTACTAATCTATCAGTTAGCTTGACAGACTCATCATCGAGGAAACAGGGATTTGTTGTTGTGGAAACAAACTTCAGACTCTATGCCTACTCAACATCTAAATTACATTGTGAAATTTTACGTCTTTTCTCAAGGGTAGAATATCAACTTCCAAACCTTATCGTTGGAGCAATAACAAAAGAAAGTTTATATAGTGCTTTTGAAAATGGCATCACTGGAGAACAGATAATTTCTTTTCTTCAGCAGAATGCACATCCACGCGTTGCAGAGAGAGTACCATCCGTACCTGAGAATGTCACAGATCAGATTAGGCTGTGGGAAACAGATCTGAATAGGGTTGAGATGACTCCAGCTTATTATTACGATGAATTTCCAACGAGGGAACTCCTCGAGGGTGCGTCTGACTTTGCGCGAGGCTATAATGCTCTGCTGTGGGAGGATGTAAATTCGAAAAAGATGCGTTTAGTGGTCAAGGCAGAAAACCACGTGCACATGCGAGAATATCTTGGACGTCAAAGGCAGTAA

Protein Analysis

455

Amino Acids

52.36

Weight (kDa)

6.24

Isoelectric Point (pI)

41.78

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Tfb2 PF03849 14 - 366 8.6e-114 Transcription factor Tfb2
Tfb2_C PF18307 381 - 449 5.7e-19 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)
AasI GACNNNNNNGTC 1 cut(s) 181
AatII GACGTC 1 cut(s) 1354
AbsI CCTCGAGG 1 cut(s) 1229
AccII CGCG 4 cut(s) 23, 608, 1101, 1252
AciI CCGC 3 cut(s) 48, 57, 526
AclWI GGATC 3 cut(s) 23, 420, 777
AcoI YGGCCR 1 cut(s) 45
AcsI RAATTY 4 cut(s) 28, 954, 1208, 1285
AcuI CTGAAG 4 cut(s) 401, 782, 898, 1064
AcvI CACGTG 1 cut(s) 1327
AcyI GRCGYC 1 cut(s) 1351
AfaI GTAC 5 cut(s) 345, 620, 635, 1116, 1125
AfiI CCNNNNNNNGG 1 cut(s) 406
AflIII ACRYGT 1 cut(s) 1099
AgsI TTSAA 5 cut(s) 164, 251, 381, 742, 1043
AluBI AGCT 8 cut(s) 67, 76, 337, 405, 557, 842, 861, 1193
AluI AGCT 8 cut(s) 67, 76, 337, 405, 557, 842, 861, 1193
Alw21I GWGCWC 1 cut(s) 1332
Alw26I GTCTC 2 cut(s) 120, 220
Alw44I GTGCAC 1 cut(s) 1328
AlwI GGATC 3 cut(s) 23, 420, 777
Ama87I CYCGRG 1 cut(s) 1229
AoxI GGCC 2 cut(s) 45, 485
ApaLI GTGCAC 1 cut(s) 1328
ApeKI GCWGC 1 cut(s) 454
ApoI RAATTY 4 cut(s) 28, 954, 1208, 1285
Asp700I GAANNNNTTC 4 cut(s) 29, 89, 105, 518
AspLEI GCGC 2 cut(s) 610, 1252
AsuHPI GGTGA 2 cut(s) 22, 184
AsuII TTCGAA 1 cut(s) 1289
AvaI CYCGRG 1 cut(s) 1229
AxyI CCTNAGG 1 cut(s) 6
BaeGI GKGCMC 1 cut(s) 1332
BbrPI CACGTG 1 cut(s) 1327
Bbv12I GWGCWC 1 cut(s) 1332
BbvI GCAGC 1 cut(s) 441
BccI CCATC 4 cut(s) 203, 496, 589, 1126
BcgI CGANNNNNNTGC 2 cut(s) 1279, 1313
BciVI GTATCC 1 cut(s) 592
BclI TGATCA 1 cut(s) 789
BcoDI GTCTC 2 cut(s) 120, 220
BfaI CTAG 3 cut(s) 431, 662, 692
BfmI CTRYAG 1 cut(s) 669
BfuI GTATCC 1 cut(s) 592
BglII AGATCT 1 cut(s) 1165
BisI GCNGC 2 cut(s) 48, 455
BlsI GCNGC 2 cut(s) 49, 456
BmeT110I CYCGRG 1 cut(s) 1229
BmiI GGNNCC 1 cut(s) 398
BmsI GCATC 2 cut(s) 1059, 1287
BplI GAGNNNNNCTC 2 cut(s) 623, 655
BpmI CTGGAG 2 cut(s) 1077, 1173
Bpu14I TTCGAA 1 cut(s) 1289
BpuEI CTTGAG 2 cut(s) 314, 955
BsaAI YACGTR 1 cut(s) 1327
BsaHI GRCGYC 1 cut(s) 1351
BsaI GGTCTC 2 cut(s) 120, 220
BsaWI WCCGGW 1 cut(s) 169
Bsc4I CCNNNNNNNGG 1 cut(s) 406
Bse1I ACTGG 2 cut(s) 583, 1060
Bse21I CCTNAGG 1 cut(s) 6
BseGI GGATG 3 cut(s) 1093, 1118, 1285
BseLI CCNNNNNNNGG 1 cut(s) 406
BseMII CTCAG 3 cut(s) 20, 124, 1119
BseNI ACTGG 2 cut(s) 583, 1060
BseRI GAGGAG 3 cut(s) 206, 665, 1217
BseSI GKGCMC 1 cut(s) 1332
BseXI GCAGC 1 cut(s) 441
Bsh1236I CGCG 4 cut(s) 23, 608, 1101, 1252
BshFI GGCC 2 cut(s) 47, 487
BsiHKAI GWGCWC 1 cut(s) 1332
BsiHKCI CYCGRG 1 cut(s) 1229
BsiSI CCGG 1 cut(s) 170
BslFI GGGAC 1 cut(s) 798
BslI CCNNNNNNNGG 1 cut(s) 406
BsmAI GTCTC 2 cut(s) 120, 220
BsmFI GGGAC 1 cut(s) 798
BsmI GAATGC 3 cut(s) 89, 91, 1093
BsnI GGCC 2 cut(s) 47, 487
Bso31I GGTCTC 2 cut(s) 120, 220
BsoBI CYCGRG 1 cut(s) 1229
Bsp119I TTCGAA 1 cut(s) 1289
Bsp1286I GDGCHC 1 cut(s) 1332
Bsp143I GATC 7 cut(s) 15, 238, 412, 769, 789, 1141, 1165
Bsp68I TCGCGA 1 cut(s) 23
BspACI CCGC 3 cut(s) 48, 57, 526
BspANI GGCC 2 cut(s) 47, 487
BspCNI CTCAG 3 cut(s) 19, 123, 1120
BspFNI CGCG 4 cut(s) 23, 608, 1101, 1252
BspLI GGNNCC 1 cut(s) 398
BspMAI CTGCAG 1 cut(s) 673
BspPI GGATC 3 cut(s) 23, 420, 777
BspT104I TTCGAA 1 cut(s) 1289
BspTNI GGTCTC 2 cut(s) 120, 220
BsrI ACTGG 2 cut(s) 583, 1060
BssMI GATC 7 cut(s) 15, 238, 412, 769, 789, 1141, 1165
BssNI GRCGYC 1 cut(s) 1351
Bst4CI ACNGT 7 cut(s) 126, 153, 274, 350, 391, 575, 818
Bst6I CTCTTC 1 cut(s) 278
BstACI GRCGYC 1 cut(s) 1351
BstBAI YACGTR 1 cut(s) 1327
BstBI TTCGAA 1 cut(s) 1289
BstC8I GCNNGC 1 cut(s) 57
BstDEI CTNAG 5 cut(s) 6, 110, 132, 698, 1128
BstF5I GGATG 3 cut(s) 1093, 1118, 1285
BstFNI CGCG 4 cut(s) 23, 608, 1101, 1252
BstHHI GCGC 2 cut(s) 610, 1252
BstKTI GATC 7 cut(s) 18, 241, 415, 772, 792, 1144, 1168
BstMAI GTCTC 2 cut(s) 120, 220
BstMBI GATC 7 cut(s) 15, 238, 412, 769, 789, 1141, 1165
BstMWI GCNNNNNNNGC 2 cut(s) 56, 73
BstNSI RCATGY 1 cut(s) 1336
BstSFI CTRYAG 1 cut(s) 669
BstSLI GKGCMC 1 cut(s) 1332
BstUI CGCG 4 cut(s) 23, 608, 1101, 1252
BstV1I GCAGC 1 cut(s) 441
BstX2I RGATCY 3 cut(s) 412, 769, 1165
BstXI CCANNNNNNTGG 1 cut(s) 187
BstYI RGATCY 3 cut(s) 412, 769, 1165
Bsu36I CCTNAGG 1 cut(s) 6
BsuI GTATCC 1 cut(s) 592
BsuRI GGCC 2 cut(s) 47, 487
BtgZI GCGATG 1 cut(s) 4
BtsCI GGATG 3 cut(s) 1093, 1118, 1285
BtsIMutI CAGTG 3 cut(s) 396, 580, 1053
BtuMI TCGCGA 1 cut(s) 23
Cac8I GCNNGC 1 cut(s) 57
CfoI GCGC 2 cut(s) 610, 1252
CseI GACGC 1 cut(s) 1227
Csp6I GTAC 5 cut(s) 344, 619, 634, 1115, 1124
CviAII CATG 5 cut(s) 34, 40, 61, 707, 1333
CviQI GTAC 5 cut(s) 344, 619, 634, 1115, 1124
DdeI CTNAG 5 cut(s) 6, 110, 132, 698, 1128
DpnI GATC 7 cut(s) 17, 240, 414, 771, 791, 1143, 1167
DpnII GATC 7 cut(s) 15, 238, 412, 769, 789, 1141, 1165
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 2 cut(s) 120, 220
Eco57I CTGAAG 4 cut(s) 401, 782, 898, 1064
Eco72I CACGTG 1 cut(s) 1327
Eco81I CCTNAGG 1 cut(s) 6
Eco88I CYCGRG 1 cut(s) 1229
EcoT22I ATGCAT 1 cut(s) 91
FaeI CATG 5 cut(s) 37, 43, 64, 710, 1336
FaqI GGGAC 1 cut(s) 798
FatI CATG 5 cut(s) 33, 39, 60, 706, 1332
FauI CCCGC 2 cut(s) 64, 519
FbaI TGATCA 1 cut(s) 789
Fnu4HI GCNGC 2 cut(s) 48, 455
FokI GGATG 3 cut(s) 1080, 1105, 1292
Fsp4HI GCNGC 2 cut(s) 48, 455
FspBI CTAG 3 cut(s) 431, 662, 692
GlaI GCGC 2 cut(s) 609, 1251
GluI GCNGC 2 cut(s) 48, 455
GsuI CTGGAG 2 cut(s) 1077, 1173
HaeIII GGCC 2 cut(s) 47, 487
HapII CCGG 1 cut(s) 170
HgaI GACGC 1 cut(s) 1227
HhaI GCGC 2 cut(s) 610, 1252
Hin1I GRCGYC 1 cut(s) 1351
Hin1II CATG 5 cut(s) 37, 43, 64, 710, 1336
Hin6I GCGC 2 cut(s) 608, 1250
HinP1I GCGC 2 cut(s) 608, 1250
HindIII AAGCTT 2 cut(s) 335, 403
HinfI GANTC 6 cut(s) 247, 538, 665, 869, 918, 1186
HpaII CCGG 1 cut(s) 170
HphI GGTGA 2 cut(s) 22, 184
Hpy166II GTNNAC 3 cut(s) 277, 346, 1330
Hpy188I TCNGA 7 cut(s) 321, 629, 649, 917, 1146, 1170, 1243
Hpy188III TCNNGA 4 cut(s) 22, 206, 217, 331
Hpy8I GTNNAC 3 cut(s) 277, 346, 1330
HpyAV CCTTC 2 cut(s) 387, 801
HpyCH4III ACNGT 7 cut(s) 126, 153, 274, 350, 391, 575, 818
HpyCH4IV ACGT 3 cut(s) 961, 1326, 1351
HpyF10VI GCNNNNNNNGC 2 cut(s) 56, 73
HpyF3I CTNAG 5 cut(s) 6, 110, 132, 698, 1128
HpySE526I ACGT 3 cut(s) 961, 1326, 1351
Hsp92I GRCGYC 1 cut(s) 1351
Hsp92II CATG 5 cut(s) 37, 43, 64, 710, 1336
HspAI GCGC 2 cut(s) 608, 1250
Ksp22I TGATCA 1 cut(s) 789
Kzo9I GATC 7 cut(s) 15, 238, 412, 769, 789, 1141, 1165
LmnI GCTCC 4 cut(s) 402, 562, 652, 1007
Lsp1109I GCAGC 1 cut(s) 441
LweI GCATC 2 cut(s) 1059, 1287
MaeI CTAG 3 cut(s) 431, 662, 692
MaeII ACGT 3 cut(s) 961, 1326, 1351
MaeIII GTNAC 3 cut(s) 172, 709, 1135
MalI GATC 7 cut(s) 17, 240, 414, 771, 791, 1143, 1167
MboI GATC 7 cut(s) 15, 238, 412, 769, 789, 1141, 1165
MboII GAAGA 5 cut(s) 37, 295, 407, 766, 1070
MfeI CAATTG 2 cut(s) 234, 251
MflI RGATCY 3 cut(s) 412, 769, 1165
MhlI GDGCHC 1 cut(s) 1332
MluI ACGCGT 1 cut(s) 1099
MlyI GAGTC 4 cut(s) 547, 863, 912, 1180
MmeI TCCRAC 2 cut(s) 985, 1238
Mph1103I ATGCAT 1 cut(s) 91
MroXI GAANNNNTTC 4 cut(s) 29, 89, 105, 518
MseI TTAA 1 cut(s) 566
MslI CAYNNNNRTG 1 cut(s) 38
MspA1I CMGCKG 1 cut(s) 526
MspI CCGG 1 cut(s) 170
MunI CAATTG 2 cut(s) 234, 251
Mva1269I GAATGC 3 cut(s) 89, 91, 1093
MvnI CGCG 4 cut(s) 23, 608, 1101, 1252
MwoI GCNNNNNNNGC 2 cut(s) 56, 73
NdeII GATC 7 cut(s) 15, 238, 412, 769, 789, 1141, 1165
NlaIII CATG 5 cut(s) 37, 43, 64, 710, 1336
NlaIV GGNNCC 1 cut(s) 398
NmeAIII GCCGAG 1 cut(s) 387
NmuCI GTSAC 2 cut(s) 172, 1135
NruI TCGCGA 1 cut(s) 23
NsiI ATGCAT 1 cut(s) 91
NspI RCATGY 1 cut(s) 1336
NspV TTCGAA 1 cut(s) 1289
PaeR7I CTCGAG 1 cut(s) 1229
PctI GAATGC 3 cut(s) 89, 91, 1093
PdmI GAANNNNTTC 4 cut(s) 29, 89, 105, 518
PfeI GAWTC 2 cut(s) 247, 665
PkrI GCNGC 2 cut(s) 49, 456
PleI GAGTC 4 cut(s) 546, 863, 912, 1180
PmaCI CACGTG 1 cut(s) 1327
PmlI CACGTG 1 cut(s) 1327
PpsI GAGTC 4 cut(s) 546, 863, 912, 1180
Ppu21I YACGTR 1 cut(s) 1327
PspCI CACGTG 1 cut(s) 1327
PspN4I GGNNCC 1 cut(s) 398
PspXI VCTCGAGB 1 cut(s) 1229
PstI CTGCAG 1 cut(s) 673
PsuI RGATCY 3 cut(s) 412, 769, 1165
RruI TCGCGA 1 cut(s) 23
RsaI GTAC 5 cut(s) 345, 620, 635, 1116, 1125
RsaNI GTAC 5 cut(s) 344, 619, 634, 1115, 1124
RseI CAYNNNNRTG 1 cut(s) 38
SaqAI TTAA 1 cut(s) 566
SatI GCNGC 2 cut(s) 48, 455
Sau3AI GATC 7 cut(s) 15, 238, 412, 769, 789, 1141, 1165
SchI GAGTC 4 cut(s) 547, 863, 912, 1180
SduI GDGCHC 1 cut(s) 1332
SfaNI GCATC 2 cut(s) 1059, 1287
SfcI CTRYAG 1 cut(s) 669
Sfr274I CTCGAG 1 cut(s) 1229
SfuI TTCGAA 1 cut(s) 1289
SlaI CTCGAG 1 cut(s) 1229
SmiMI CAYNNNNRTG 1 cut(s) 38
SmlI CTYRAG 3 cut(s) 329, 970, 1229
SmoI CTYRAG 3 cut(s) 329, 970, 1229
SsiI CCGC 3 cut(s) 48, 57, 526
SspI AATATT 1 cut(s) 261
SspMI CTAG 3 cut(s) 431, 662, 692
TaaI ACNGT 7 cut(s) 126, 153, 274, 350, 391, 575, 818
TaiI ACGT 3 cut(s) 964, 1329, 1354
TaqI TCGA 6 cut(s) 69, 218, 491, 878, 1230, 1289
TatI WGTACW 1 cut(s) 633
TauI GCSGC 1 cut(s) 50
TfiI GAWTC 2 cut(s) 247, 665
Tru1I TTAA 1 cut(s) 566
Tru9I TTAA 1 cut(s) 566
TscAI CASTG 3 cut(s) 396, 580, 1060
TseFI GTSAC 2 cut(s) 172, 1135
TseI GCWGC 1 cut(s) 454
Tsp45I GTSAC 2 cut(s) 172, 1135
TspDTI ATGAA 6 cut(s) 22, 77, 82, 527, 695, 1221
TspGWI ACGGA 1 cut(s) 1111
TspRI CASTG 3 cut(s) 396, 580, 1060
VneI GTGCAC 1 cut(s) 1328
XapI RAATTY 4 cut(s) 28, 954, 1208, 1285
XceI RCATGY 1 cut(s) 1336
XhoI CTCGAG 1 cut(s) 1229
XmnI GAANNNNTTC 4 cut(s) 29, 89, 105, 518
XspI CTAG 3 cut(s) 431, 662, 692
ZraI GACGTC 1 cut(s) 1352
Zsp2I ATGCAT 1 cut(s) 91
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.