Rorug05G0335000

Recruits TFIIH to the initiation complex and stimulates the RNA polymerase II C-terminal domain kinase and DNA-dependent ATPase activities of TFIIH. Both TFIIH and TFIIE are required for promoter clearance by RNA polymerase

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000005
Physical Location & Seq
Forward (+)
40594637 .. 40598347
3711 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug05G0335000.1

Sequence Viewer

Length: 1149 bp
ATGAGTGGGATTTCCAAGGAGGCTCAGCTTTCCATCGCTGCCTCTTCGATGTTTCCGGGGTTTAGGTTCTCACCGACCGACGAGGAATTGATTTCGTACTACCTTAAGAACAAGTTGGTGTACCCTGACAAGAGCGTGGAGGTCATTTCCGAAGTCGATATCTGCAACTTCGAGCCCTGGGACCTACCGGCTAAATCTGTCATTCAATCGGAGAATGAGTGGTTCTTCTTTTCTCCGCGGGGTAGAAAGTACCCAAATGGTTCACAGAGCAGGAGGGCAACTGAATTTGGTTATTGGAAAGCCACAGGCAAAGAACGTAATGTAAAGTCAAGTTCTAATGTTGTCGGTACCAAGAGGACACTTGTGTTCCACATCGGACGTGCACCAAAAGGTGAAAGAACAGAATGGATTATGCATGAATACTGTATGCTGAATGATAAATCCCAGGATTCTATGGTTGTTTGCCGCCTTAGGAAGAACAGTGAGTTCCATCTGAATGACACCACAAACCGAGGTTCCTCAAGTCAAAGTCCTTTATCAACTGTGCAGAATAGTGAAAATGCTATCTTCGAAGTTGGTATTGATCAAGGGGAGAAGGCAACTGAATGCCACTCAAAGAAATCTACTAGCAGTTATGATTCTCATTCTATTGAGCAAATTGATTCTGTATCTGACTCCTATCCGAAGCTGACACCAGAGGTAACACAGATGGAATCATCTCAGCACCAAAAGGGTTCTTATGATGATGACTTCTTCGCTGAGATACTTAAAGATGATATAATCAATCTAGACGAATCTTCAGTCTCCGTTGCTGCTGACATCCCACCAGTGGTTGCAAATAATTCAGAAGCCCAACAACATTCGATGCAAGCTGTTGTGTCTCAAGCCATTCCTTTCCAAGGTACTGCAAATCGAAGAATCCGATTAAGAAGGCCAAAGTTAAAGTCTCGTGCGCAAGCATTAATAGAACGTACCAACTCAGAGCAGTCACCAAAAGGTTTAGCAAATAATCACGTGTTGATATATGTAATTTTGGTTTTTTTGGTATTGCTCGTTCTGTTTCTGTCAAATTTTTGTTTTTCTAATATTACTGGGTCTGTTTCTTTTTATGTTGGGAGGTTTCTGGCTAGTGAAAAACATCATAAATGA

Protein Analysis

382

Amino Acids

43.02

Weight (kDa)

6.81

Isoelectric Point (pI)

54.13

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NAM PF02365 19 - 142 6.7e-45 No apical meristem (NAM) protein
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)
Acc16I TGCGCA 1 cut(s) 954
Acc65I GGTACC 1 cut(s) 347
AccB1I GGYRCC 1 cut(s) 347
AccII CGCG 1 cut(s) 238
AciI CCGC 3 cut(s) 236, 238, 466
AcsI RAATTY 2 cut(s) 284, 1069
AcuI CTGAAG 1 cut(s) 783
AcvI CACGTG 1 cut(s) 1015
AfaI GTAC 6 cut(s) 98, 122, 251, 349, 904, 973
AfiI CCNNNNNNNGG 2 cut(s) 829, 899
AflII CTTAAG 1 cut(s) 104
AflIII ACRYGT 1 cut(s) 1014
AgsI TTSAA 1 cut(s) 206
AjiI CACGTC 1 cut(s) 380
AjnI CCWGG 2 cut(s) 176, 444
AluBI AGCT 3 cut(s) 28, 688, 872
AluI AGCT 3 cut(s) 28, 688, 872
Alw21I GWGCWC 1 cut(s) 385
Alw26I GTCTC 3 cut(s) 808, 885, 951
Alw44I GTGCAC 1 cut(s) 381
AoxI GGCC 1 cut(s) 932
ApaLI GTGCAC 1 cut(s) 381
ApeKI GCWGC 2 cut(s) 38, 812
ApoI RAATTY 2 cut(s) 284, 1069
ArsI GACNNNNNNTTYG 4 cut(s) 786, 818, 929, 961
AseI ATTAAT 1 cut(s) 962
Asp718I GGTACC 1 cut(s) 347
AspLEI GCGC 1 cut(s) 955
AspS9I GGNCC 1 cut(s) 181
AsuC2I CCSGG 1 cut(s) 57
AsuHPI GGTGA 3 cut(s) 63, 404, 981
AsuII TTCGAA 1 cut(s) 570
AvaII GGWCC 1 cut(s) 181
AxyI CCTNAGG 1 cut(s) 470
BaeGI GKGCMC 1 cut(s) 385
BanI GGYRCC 1 cut(s) 347
BanII GRGCYC 1 cut(s) 177
BauI CACGAG 1 cut(s) 948
BbrPI CACGTG 1 cut(s) 1015
Bbv12I GWGCWC 1 cut(s) 385
BbvI GCAGC 2 cut(s) 25, 799
BccI CCATC 3 cut(s) 41, 498, 703
BciT130I CCWGG 2 cut(s) 178, 446
BclI TGATCA 1 cut(s) 583
BcnI CCSGG 1 cut(s) 57
BcoDI GTCTC 3 cut(s) 808, 885, 951
BfaI CTAG 3 cut(s) 627, 788, 1128
BfrI CTTAAG 1 cut(s) 104
BisI GCNGC 3 cut(s) 39, 466, 813
BlpI GCTNAGC 1 cut(s) 24
BlsI GCNGC 3 cut(s) 40, 467, 814
Bme1390I CCNGG 3 cut(s) 57, 178, 446
Bme18I GGWCC 1 cut(s) 181
BmgBI CACGTC 1 cut(s) 380
BmgT120I GGNCC 1 cut(s) 181
BmiI GGNNCC 3 cut(s) 182, 349, 517
BmrFI CCNGG 3 cut(s) 57, 178, 446
BmrI ACTGGG 1 cut(s) 1101
BmsI GCATC 1 cut(s) 855
BmuI ACTGGG 1 cut(s) 1101
Bpu1102I GCTNAGC 1 cut(s) 24
Bpu14I TTCGAA 1 cut(s) 570
BpuEI CTTGAG 2 cut(s) 505, 867
BpuMI CCSGG 1 cut(s) 57
BsaAI YACGTR 1 cut(s) 1015
BsaJI CCNNGG 8 cut(s) 15, 56, 176, 177, 236, 444, 511, 898
BsaXI ACNNNNNCTCC 2 cut(s) 203, 233
Bsc4I CCNNNNNNNGG 2 cut(s) 829, 899
Bse118I RCCGGY 1 cut(s) 187
Bse1I ACTGG 2 cut(s) 827, 1096
Bse21I CCTNAGG 1 cut(s) 470
BseBI CCWGG 2 cut(s) 178, 446
BseDI CCNNGG 8 cut(s) 15, 56, 176, 177, 236, 444, 511, 898
BseGI GGATG 1 cut(s) 819
BseLI CCNNNNNNNGG 2 cut(s) 829, 899
BseMII CTCAG 4 cut(s) 38, 734, 750, 993
BseNI ACTGG 2 cut(s) 827, 1096
BseSI GKGCMC 1 cut(s) 385
BseXI GCAGC 2 cut(s) 25, 799
BsgI GTGCAG 1 cut(s) 566
Bsh1236I CGCG 1 cut(s) 238
Bsh1285I CGRYCG 1 cut(s) 78
BshFI GGCC 1 cut(s) 934
BshNI GGYRCC 1 cut(s) 347
BsiEI CGRYCG 1 cut(s) 78
BsiHKAI GWGCWC 1 cut(s) 385
BsiSI CCGG 2 cut(s) 56, 188
BslFI GGGAC 1 cut(s) 194
BslI CCNNNNNNNGG 2 cut(s) 829, 899
BsmAI GTCTC 3 cut(s) 808, 885, 951
BsmFI GGGAC 1 cut(s) 194
BsmI GAATGC 1 cut(s) 611
BsnI GGCC 1 cut(s) 934
Bsp119I TTCGAA 1 cut(s) 570
Bsp1286I GDGCHC 2 cut(s) 177, 385
Bsp143I GATC 1 cut(s) 583
Bsp1720I GCTNAGC 1 cut(s) 24
BspACI CCGC 3 cut(s) 236, 238, 466
BspANI GGCC 1 cut(s) 934
BspCNI CTCAG 4 cut(s) 37, 733, 751, 992
BspFNI CGCG 1 cut(s) 238
BspLI GGNNCC 3 cut(s) 182, 349, 517
BspT104I TTCGAA 1 cut(s) 570
BspT107I GGYRCC 1 cut(s) 347
BspTI CTTAAG 1 cut(s) 104
BsrFI RCCGGY 1 cut(s) 187
BsrI ACTGG 2 cut(s) 827, 1096
BssAI RCCGGY 1 cut(s) 187
BssECI CCNNGG 8 cut(s) 15, 56, 176, 177, 236, 444, 511, 898
BssMI GATC 1 cut(s) 583
BssSI CACGAG 1 cut(s) 948
BssT1I CCWWGG 2 cut(s) 15, 898
Bst2BI CACGAG 1 cut(s) 948
Bst2UI CCWGG 2 cut(s) 178, 446
Bst4CI ACNGT 3 cut(s) 425, 482, 544
Bst6I CTCTTC 1 cut(s) 49
BstAFI CTTAAG 1 cut(s) 104
BstBAI YACGTR 1 cut(s) 1015
BstBI TTCGAA 1 cut(s) 570
BstC8I GCNNGC 2 cut(s) 870, 957
BstDEI CTNAG 5 cut(s) 24, 470, 720, 759, 979
BstDSI CCRYGG 1 cut(s) 236
BstENI CCTNNNNNAGG 1 cut(s) 897
BstF5I GGATG 1 cut(s) 819
BstFNI CGCG 1 cut(s) 238
BstHHI GCGC 1 cut(s) 955
BstKTI GATC 1 cut(s) 586
BstMAI GTCTC 3 cut(s) 808, 885, 951
BstMBI GATC 1 cut(s) 583
BstMCI CGRYCG 1 cut(s) 78
BstNI CCWGG 2 cut(s) 178, 446
BstSCI CCNGG 3 cut(s) 55, 176, 444
BstSLI GKGCMC 1 cut(s) 385
BstUI CGCG 1 cut(s) 238
BstV1I GCAGC 2 cut(s) 25, 799
Bsu36I CCTNAGG 1 cut(s) 470
BsuRI GGCC 1 cut(s) 934
BtgI CCRYGG 1 cut(s) 236
BtgZI GCGATG 1 cut(s) 19
BtrI CACGTC 1 cut(s) 380
BtsCI GGATG 1 cut(s) 819
BtsIMutI CAGTG 2 cut(s) 487, 834
Cac8I GCNNGC 2 cut(s) 870, 957
CfoI GCGC 1 cut(s) 955
Cfr10I RCCGGY 1 cut(s) 187
Cfr13I GGNCC 1 cut(s) 181
Cfr42I CCGCGG 1 cut(s) 239
Csp6I GTAC 6 cut(s) 97, 121, 250, 348, 903, 972
CviAII CATG 1 cut(s) 416
CviQI GTAC 6 cut(s) 97, 121, 250, 348, 903, 972
DdeI CTNAG 5 cut(s) 24, 470, 720, 759, 979
DpnI GATC 1 cut(s) 585
DpnII GATC 1 cut(s) 583
Eam1104I CTCTTC 1 cut(s) 49
EarI CTCTTC 1 cut(s) 49
Eco130I CCWWGG 2 cut(s) 15, 898
Eco24I GRGCYC 1 cut(s) 177
Eco32I GATATC 1 cut(s) 160
Eco47I GGWCC 1 cut(s) 181
Eco57I CTGAAG 1 cut(s) 783
Eco72I CACGTG 1 cut(s) 1015
Eco81I CCTNAGG 1 cut(s) 470
EcoNI CCTNNNNNAGG 1 cut(s) 897
EcoO109I RGGNCCY 1 cut(s) 181
EcoRII CCWGG 2 cut(s) 176, 444
EcoRV GATATC 1 cut(s) 160
EcoT14I CCWWGG 2 cut(s) 15, 898
EcoT22I ATGCAT 1 cut(s) 417
EcoT38I GRGCYC 1 cut(s) 177
ErhI CCWWGG 2 cut(s) 15, 898
FaeI CATG 1 cut(s) 419
FaqI GGGAC 1 cut(s) 194
FatI CATG 1 cut(s) 415
FauI CCCGC 1 cut(s) 231
FbaI TGATCA 1 cut(s) 583
Fnu4HI GCNGC 3 cut(s) 39, 466, 813
FokI GGATG 1 cut(s) 806
FriOI GRGCYC 1 cut(s) 177
Fsp4HI GCNGC 3 cut(s) 39, 466, 813
FspBI CTAG 3 cut(s) 627, 788, 1128
FspI TGCGCA 1 cut(s) 954
GlaI GCGC 1 cut(s) 954
GluI GCNGC 3 cut(s) 39, 466, 813
HaeIII GGCC 1 cut(s) 934
HapII CCGG 2 cut(s) 56, 188
HhaI GCGC 1 cut(s) 955
Hin1II CATG 1 cut(s) 419
Hin6I GCGC 1 cut(s) 953
HinP1I GCGC 1 cut(s) 953
HinfI GANTC 7 cut(s) 449, 638, 662, 674, 713, 794, 918
HpaII CCGG 2 cut(s) 56, 188
HphI GGTGA 3 cut(s) 63, 404, 981
Hpy166II GTNNAC 3 cut(s) 121, 263, 383
Hpy188I TCNGA 9 cut(s) 151, 211, 377, 495, 673, 684, 847, 923, 982
Hpy188III TCNNGA 1 cut(s) 788
Hpy8I GTNNAC 3 cut(s) 121, 263, 383
Hpy99I CGWCG 1 cut(s) 83
HpyAV CCTTC 2 cut(s) 589, 924
HpyCH4III ACNGT 3 cut(s) 425, 482, 544
HpyCH4IV ACGT 4 cut(s) 316, 379, 970, 1014
HpyCH4V TGCA 7 cut(s) 165, 383, 415, 547, 836, 868, 908
HpyF3I CTNAG 5 cut(s) 24, 470, 720, 759, 979
HpySE526I ACGT 4 cut(s) 316, 379, 970, 1014
Hsp92II CATG 1 cut(s) 419
HspAI GCGC 1 cut(s) 953
KpnI GGTACC 1 cut(s) 351
Ksp22I TGATCA 1 cut(s) 583
KspI CCGCGG 1 cut(s) 239
Kzo9I GATC 1 cut(s) 583
Lsp1109I GCAGC 2 cut(s) 25, 799
LweI GCATC 1 cut(s) 855
MaeI CTAG 3 cut(s) 627, 788, 1128
MaeII ACGT 4 cut(s) 316, 379, 970, 1014
MaeIII GTNAC 2 cut(s) 700, 987
MalI GATC 1 cut(s) 585
MboI GATC 1 cut(s) 583
MboII GAAGA 7 cut(s) 36, 217, 487, 559, 745, 789, 927
MhlI GDGCHC 2 cut(s) 177, 385
MluCI AATT 6 cut(s) 86, 284, 657, 841, 1029, 1069
MlyI GAGTC 1 cut(s) 668
Mph1103I ATGCAT 1 cut(s) 417
MseI TTAA 5 cut(s) 105, 768, 926, 941, 962
MslI CAYNNNNRTG 1 cut(s) 495
MspA1I CMGCKG 1 cut(s) 238
MspCI CTTAAG 1 cut(s) 104
MspI CCGG 2 cut(s) 56, 188
MspR9I CCNGG 3 cut(s) 57, 178, 446
Mva1269I GAATGC 1 cut(s) 611
MvaI CCWGG 2 cut(s) 178, 446
MvnI CGCG 1 cut(s) 238
NciI CCSGG 1 cut(s) 57
NdeII GATC 1 cut(s) 583
NlaIII CATG 1 cut(s) 419
NlaIV GGNNCC 3 cut(s) 182, 349, 517
NmuCI GTSAC 1 cut(s) 987
NsbI TGCGCA 1 cut(s) 954
NsiI ATGCAT 1 cut(s) 417
NspV TTCGAA 1 cut(s) 570
PasI CCCWGGG 1 cut(s) 177
PcsI WCGNNNNNNNCGW 1 cut(s) 919
PctI GAATGC 1 cut(s) 611
PfeI GAWTC 6 cut(s) 449, 638, 662, 713, 794, 918
PkrI GCNGC 3 cut(s) 40, 467, 814
PleI GAGTC 1 cut(s) 668
PmaCI CACGTG 1 cut(s) 1015
PmlI CACGTG 1 cut(s) 1015
PpsI GAGTC 1 cut(s) 668
Ppu21I YACGTR 1 cut(s) 1015
PpuMI RGGWCCY 1 cut(s) 181
PshBI ATTAAT 1 cut(s) 962
Psp5II RGGWCCY 1 cut(s) 181
Psp6I CCWGG 2 cut(s) 176, 444
PspCI CACGTG 1 cut(s) 1015
PspGI CCWGG 2 cut(s) 176, 444
PspN4I GGNNCC 3 cut(s) 182, 349, 517
PspPI GGNCC 1 cut(s) 181
PspPPI RGGWCCY 1 cut(s) 181
PsrI GAACNNNNNNTAC 2 cut(s) 1038, 1070
RsaI GTAC 6 cut(s) 98, 122, 251, 349, 904, 973
RsaNI GTAC 6 cut(s) 97, 121, 250, 348, 903, 972
RseI CAYNNNNRTG 1 cut(s) 495
SacII CCGCGG 1 cut(s) 239
SaqAI TTAA 5 cut(s) 105, 768, 926, 941, 962
SatI GCNGC 3 cut(s) 39, 466, 813
Sau3AI GATC 1 cut(s) 583
Sau96I GGNCC 1 cut(s) 181
SchI GAGTC 1 cut(s) 668
ScrFI CCNGG 3 cut(s) 57, 178, 446
SduI GDGCHC 2 cut(s) 177, 385
SfaNI GCATC 1 cut(s) 855
Sfr303I CCGCGG 1 cut(s) 239
SfuI TTCGAA 1 cut(s) 570
SgrBI CCGCGG 1 cut(s) 239
SinI GGWCC 1 cut(s) 181
SmiMI CAYNNNNRTG 1 cut(s) 495
SmlI CTYRAG 3 cut(s) 104, 520, 882
SmoI CTYRAG 3 cut(s) 104, 520, 882
Sse9I AATT 6 cut(s) 86, 284, 657, 841, 1029, 1069
SsiI CCGC 3 cut(s) 236, 238, 466
SspI AATATT 1 cut(s) 1087
SspMI CTAG 3 cut(s) 627, 788, 1128
StyD4I CCNGG 3 cut(s) 55, 176, 444
StyI CCWWGG 2 cut(s) 15, 898
TaaI ACNGT 3 cut(s) 425, 482, 544
TaiI ACGT 4 cut(s) 319, 382, 973, 1017
TaqI TCGA 6 cut(s) 47, 156, 171, 570, 863, 913
TaqII GACCGA 1 cut(s) 92
TasI AATT 6 cut(s) 86, 284, 657, 841, 1029, 1069
TauI GCSGC 1 cut(s) 468
TfiI GAWTC 6 cut(s) 449, 638, 662, 713, 794, 918
Tru1I TTAA 5 cut(s) 105, 768, 926, 941, 962
Tru9I TTAA 5 cut(s) 105, 768, 926, 941, 962
TscAI CASTG 2 cut(s) 487, 834
TseFI GTSAC 1 cut(s) 987
TseI GCWGC 2 cut(s) 38, 812
Tsp45I GTSAC 1 cut(s) 987
TspDTI ATGAA 1 cut(s) 432
TspGWI ACGGA 1 cut(s) 796
TspRI CASTG 2 cut(s) 487, 834
Vha464I CTTAAG 1 cut(s) 104
VneI GTGCAC 1 cut(s) 381
VpaK11BI GGWCC 1 cut(s) 181
VspI ATTAAT 1 cut(s) 962
XagI CCTNNNNNAGG 1 cut(s) 897
XapI RAATTY 2 cut(s) 284, 1069
XbaI TCTAGA 1 cut(s) 787
XspI CTAG 3 cut(s) 627, 788, 1128
Zsp2I ATGCAT 1 cut(s) 417
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.