Rroxscaffold_1G00009860

Transcription initiation factor TFIID subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0007365
Physical Location & Seq
Reverse (-)
12344430 .. 12347767
3338 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00009860.1

Sequence Viewer

Length: 1413 bp
ATGGCTGGCATGTATGGTCAGGAGGGCGGCGGTGGTGCCGCTCCGCCGTATGGATCTAGCGGCGGTGGTGGCTACGGTGGCTCCGGAGGGTATGGAGGCGGTTCCGGAGGTTATGGAGGCGGCGGTGGCGGTGGAGGCTACGGAGGAGGCGGTGGGGGATATGGAGGTAAAGGCGGCGATAGCGGTGGTTACGGTGGTGGAGGCCGTGGTGGTCGAGGTGGAGGAGGTTATGGTGGCGGTCGAGGTGGAGGATATCAAGGCGATCGTGGAGGTGGCCGCGGAGGTGGAGGCGGCGGCGGCAGAGGTGGCCGTGGTGGCAGTGGAAGGGATGGTGATTGGCCTTGCCCTAATCCAGGCTGTGGGAATGTGAACTTTGCGAGAAGAACTGAGTGTAACAAGTGTGGTACGCCCTCTCCTGTGGGTGCTGGTGGCGGTGGTGGAGACCGTGGTGGTGGAGGTGGTTATAATAGAGGTGGAAGTGGTGGGGGATATGGTGATAGCCGTGGTGGCAGAGGTGGTAATTATGATGGGGGTCGAAGTGGCAACTATGAAGGAGGTAAAGGTAGCAGTTATGATGGAGGCAGAGGGGGTGGTTTTGATAGTAGAGGTGGAGGAGGTGGGAGTAGAGGTGGTTCTTATGGTGGTAACCAAGGAAGAGATGATGGTGGGTATGGTCAGGCTCCTGCAGCTGCTCCTCCATCTTATGGTGCAGGTGGCAGTTACCCACCATCGTACAATGCTAATTATGGAACAGATGCAGTCCCTCCTCCTACAAGCTATACTGGTGGGCCTGCTTCATATCCCCCATCCTATGGTGGTCCTGCAGGTGGTTATGGTGGTGATGGTCCGGGTGATGCAAGGAGTGGCGGGCGAGGTGGCCCTCCTGCTAAATATGATGGCGGATATGGTAGCGGTGGTGGTGGTCGAGGTGGTTATGGAAGTGCTCCTACAGAGGCCCCTGCTAAGGTGAAGCAATGCGACGAGAACTGTGATGATACTTGTGACAATGCTAGAATTTACATATCAAATCTGCCACCAGATGTCACGGTCGATGAACTGCAAGCTCTTTTTGGAGGCATTGGACAAGTTGGGAGAATCAAGCAGAAACGTGGGTACAAGGATCAGTGGCCATATAACATCAAAATTTACACAGATGAGTCGGGAAAGAACAAAGGTGATGCATGTTTAGCCTATGAAGATCCAAATGCTGCACATTCAGCTGGCAGTTTTTACAACGGTCATGACATAAGGGGCTATAAGATCAGTGTTGCGATGGCAGAGAGGTCGGCACCTAGGGCTTACGACAATGGTGGTGGTAGAGGTGGTTATGGGGGCGGTGGACGCAGGGACAATTATCGAGATGGTGGACCTGACAGACATCAGCATGGTGGAAACCGTTCACGTCCATATTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0009507 GO:0009536 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464
KEGG Pathways
Metabolic & Signaling
ko05202 map05202
Pfam Domains
Protein Families
RRM_1 zf-RanBP

Protein Analysis

470

Amino Acids

45.14

Weight (kDa)

8.95

Isoelectric Point (pI)

52.04

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Zn_ribbon_RanBP PF00641 109 - 139 1.3e-06 Zn-finger in Ran binding protein and others
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 465
AarI CACCTGC 2 cut(s) 701, 815
Acc36I ACCTGC 2 cut(s) 701, 815
AccB1I GGYRCC 2 cut(s) 35, 1288
AccB7I CCANNNNNTGG 3 cut(s) 359, 704, 812
AccBSI CCGCTC 1 cut(s) 41
AccII CGCG 1 cut(s) 279
AccIII TCCGGA 2 cut(s) 83, 104
AclWI GGATC 3 cut(s) 61, 1128, 1193
AcoI YGGCCR 3 cut(s) 274, 307, 1127
AcsI RAATTY 2 cut(s) 1014, 1143
AfaI GTAC 3 cut(s) 406, 734, 1115
AfiI CCNNNNNNNGG 7 cut(s) 50, 353, 359, 704, 812, 827, 964
AjiI CACGTC 1 cut(s) 1403
AjnI CCWGG 1 cut(s) 352
AluBI AGCT 4 cut(s) 689, 777, 1064, 1220
AluI AGCT 4 cut(s) 689, 777, 1064, 1220
Alw21I GWGCWC 1 cut(s) 946
Alw26I GTCTC 1 cut(s) 435
AlwI GGATC 3 cut(s) 61, 1128, 1193
Aor13HI TCCGGA 2 cut(s) 83, 104
AoxI GGCC 8 cut(s) 202, 274, 307, 338, 788, 877, 954, 1127
ApeKI GCWGC 3 cut(s) 686, 689, 1208
ApoI RAATTY 2 cut(s) 1014, 1143
Asp700I GAANNNNTTC 1 cut(s) 1396
AspA2I CCTAGG 1 cut(s) 1292
AspS9I GGNCC 6 cut(s) 788, 818, 845, 878, 955, 1367
AsuC2I CCSGG 1 cut(s) 849
AsuHPI GGTGA 6 cut(s) 344, 506, 851, 863, 979, 1187
AvaII GGWCC 3 cut(s) 818, 845, 1367
AvrII CCTAGG 1 cut(s) 1292
BalI TGGCCA 1 cut(s) 1129
BanI GGYRCC 2 cut(s) 35, 1288
BarI GAAGNNNNNNTAC 2 cut(s) 931, 963
Bbv12I GWGCWC 1 cut(s) 946
BbvI GCAGC 3 cut(s) 676, 698, 1195
BceAI ACGGC 4 cut(s) 31, 189, 294, 486
BcgI CGANNNNNNTGC 2 cut(s) 1266, 1300
BciT130I CCWGG 1 cut(s) 354
BcnI CCSGG 1 cut(s) 849
BcoDI GTCTC 1 cut(s) 435
BfaI CTAG 3 cut(s) 57, 1011, 1293
BfmI CTRYAG 3 cut(s) 684, 822, 948
BfuAI ACCTGC 2 cut(s) 701, 815
BglI GCCNNNNNGGC 2 cut(s) 315, 507
BlnI CCTAGG 1 cut(s) 1292
Bme1390I CCNGG 2 cut(s) 354, 849
Bme18I GGWCC 3 cut(s) 818, 845, 1367
BmgBI CACGTC 1 cut(s) 1403
BmgT120I GGNCC 6 cut(s) 788, 818, 845, 878, 955, 1367
BmiI GGNNCC 6 cut(s) 37, 82, 103, 681, 957, 1290
BmrFI CCNGG 2 cut(s) 354, 849
BmsI GCATC 3 cut(s) 745, 844, 1168
Bpu10I CCTNAGC 1 cut(s) 963
BpuMI CCSGG 1 cut(s) 849
BsaI GGTCTC 1 cut(s) 435
BsaJI CCNNGG 7 cut(s) 205, 277, 310, 445, 502, 649, 1292
BsaWI WCCGGW 2 cut(s) 83, 104
BsaXI ACNNNNNCTCC 6 cut(s) 65, 95, 397, 427, 613, 643
Bsc4I CCNNNNNNNGG 7 cut(s) 50, 353, 359, 704, 812, 827, 964
Bse1I ACTGG 1 cut(s) 787
Bse3DI GCAATG 1 cut(s) 980
BseAI TCCGGA 2 cut(s) 83, 104
BseBI CCWGG 1 cut(s) 354
BseDI CCNNGG 7 cut(s) 205, 277, 310, 445, 502, 649, 1292
BseGI GGATG 2 cut(s) 334, 806
BseLI CCNNNNNNNGG 7 cut(s) 50, 353, 359, 704, 812, 827, 964
BseMI GCAATG 1 cut(s) 980
BseMII CTCAG 1 cut(s) 378
BseNI ACTGG 1 cut(s) 787
BseRI GAGGAG 5 cut(s) 159, 237, 627, 684, 756
BseXI GCAGC 3 cut(s) 676, 698, 1195
BsgI GTGCAG 2 cut(s) 729, 1194
Bsh1236I CGCG 1 cut(s) 279
Bsh1285I CGRYCG 3 cut(s) 241, 265, 1050
BshFI GGCC 8 cut(s) 204, 276, 309, 340, 790, 879, 956, 1129
BshNI GGYRCC 2 cut(s) 35, 1288
BsiEI CGRYCG 3 cut(s) 241, 265, 1050
BsiHKAI GWGCWC 1 cut(s) 946
BsiSI CCGG 3 cut(s) 84, 105, 848
BslFI GGGAC 2 cut(s) 746, 1361
BslI CCNNNNNNNGG 7 cut(s) 50, 353, 359, 704, 812, 827, 964
BsmAI GTCTC 1 cut(s) 435
BsmFI GGGAC 2 cut(s) 746, 1361
BsnI GGCC 8 cut(s) 204, 276, 309, 340, 790, 879, 956, 1129
Bso31I GGTCTC 1 cut(s) 435
Bsp1286I GDGCHC 1 cut(s) 946
Bsp13I TCCGGA 2 cut(s) 83, 104
Bsp143I GATC 5 cut(s) 53, 262, 1120, 1198, 1260
BspANI GGCC 8 cut(s) 204, 276, 309, 340, 790, 879, 956, 1129
BspCNI CTCAG 1 cut(s) 379
BspEI TCCGGA 2 cut(s) 83, 104
BspFNI CGCG 1 cut(s) 279
BspHI TCATGA 1 cut(s) 1240
BspLI GGNNCC 6 cut(s) 37, 82, 103, 681, 957, 1290
BspMAI CTGCAG 2 cut(s) 688, 826
BspMI ACCTGC 2 cut(s) 701, 815
BspPI GGATC 3 cut(s) 61, 1128, 1193
BspT107I GGYRCC 2 cut(s) 35, 1288
BspTNI GGTCTC 1 cut(s) 435
BsrBI CCGCTC 1 cut(s) 41
BsrDI GCAATG 1 cut(s) 980
BsrI ACTGG 1 cut(s) 787
BssECI CCNNGG 7 cut(s) 205, 277, 310, 445, 502, 649, 1292
BssMI GATC 5 cut(s) 53, 262, 1120, 1198, 1260
BssT1I CCWWGG 2 cut(s) 649, 1292
Bst2UI CCWGG 1 cut(s) 354
Bst4CI ACNGT 7 cut(s) 77, 194, 446, 989, 1048, 1238, 1397
Bst6I CTCTTC 1 cut(s) 649
BstC8I GCNNGC 5 cut(s) 7, 792, 869, 1062, 1222
BstDEI CTNAG 2 cut(s) 387, 963
BstDSI CCRYGG 5 cut(s) 205, 277, 310, 445, 502
BstEII GGTNACC 1 cut(s) 644
BstENI CCTNNNNNAGG 1 cut(s) 351
BstF5I GGATG 2 cut(s) 334, 806
BstFNI CGCG 1 cut(s) 279
BstKTI GATC 5 cut(s) 56, 265, 1123, 1201, 1263
BstMAI GTCTC 1 cut(s) 435
BstMBI GATC 5 cut(s) 53, 262, 1120, 1198, 1260
BstMCI CGRYCG 3 cut(s) 241, 265, 1050
BstNI CCWGG 1 cut(s) 354
BstNSI RCATGY 2 cut(s) 13, 1185
BstPI GGTNACC 1 cut(s) 644
BstSCI CCNGG 2 cut(s) 352, 847
BstSFI CTRYAG 3 cut(s) 684, 822, 948
BstUI CGCG 1 cut(s) 279
BstV1I GCAGC 3 cut(s) 676, 698, 1195
BstX2I RGATCY 2 cut(s) 53, 1198
BstYI RGATCY 2 cut(s) 53, 1198
BsuRI GGCC 8 cut(s) 204, 276, 309, 340, 790, 879, 956, 1129
BtgI CCRYGG 5 cut(s) 205, 277, 310, 445, 502
BtgZI GCGATG 1 cut(s) 1286
BtrI CACGTC 1 cut(s) 1403
BtsCI GGATG 2 cut(s) 334, 806
BtsI GCAGTG 1 cut(s) 325
BtsIMutI CAGTG 3 cut(s) 325, 1130, 1270
BveI ACCTGC 2 cut(s) 701, 815
Cac8I GCNNGC 5 cut(s) 7, 792, 869, 1062, 1222
CciI TCATGA 1 cut(s) 1240
Cfr13I GGNCC 6 cut(s) 788, 818, 845, 878, 955, 1367
Cfr42I CCGCGG 1 cut(s) 280
CseI GACGC 1 cut(s) 1350
Csp6I GTAC 3 cut(s) 405, 733, 1114
CspCI CAANNNNNGTGG 2 cut(s) 1294, 1329
CviAII CATG 4 cut(s) 10, 1182, 1241, 1385
CviQI GTAC 3 cut(s) 405, 733, 1114
DdeI CTNAG 2 cut(s) 387, 963
DpnI GATC 5 cut(s) 55, 264, 1122, 1200, 1262
DpnII GATC 5 cut(s) 53, 262, 1120, 1198, 1260
EaeI YGGCCR 3 cut(s) 274, 307, 1127
Eam1104I CTCTTC 1 cut(s) 649
EarI CTCTTC 1 cut(s) 649
EciI GGCGGA 2 cut(s) 33, 915
Eco130I CCWWGG 2 cut(s) 649, 1292
Eco31I GGTCTC 1 cut(s) 435
Eco32I GATATC 1 cut(s) 254
Eco47I GGWCC 3 cut(s) 818, 845, 1367
Eco91I GGTNACC 1 cut(s) 644
EcoNI CCTNNNNNAGG 1 cut(s) 351
EcoO109I RGGNCCY 1 cut(s) 955
EcoO65I GGTNACC 1 cut(s) 644
EcoRII CCWGG 1 cut(s) 352
EcoRV GATATC 1 cut(s) 254
EcoT14I CCWWGG 2 cut(s) 649, 1292
EcoT22I ATGCAT 1 cut(s) 1183
ErhI CCWWGG 2 cut(s) 649, 1292
FaeI CATG 4 cut(s) 13, 1185, 1244, 1388
FaqI GGGAC 2 cut(s) 746, 1361
FatI CATG 4 cut(s) 9, 1181, 1240, 1384
FauI CCCGC 1 cut(s) 860
FokI GGATG 2 cut(s) 341, 793
FspBI CTAG 3 cut(s) 57, 1011, 1293
HaeIII GGCC 8 cut(s) 204, 276, 309, 340, 790, 879, 956, 1129
HapII CCGG 3 cut(s) 84, 105, 848
HgaI GACGC 1 cut(s) 1350
Hin1II CATG 4 cut(s) 13, 1185, 1244, 1388
HinfI GANTC 2 cut(s) 1095, 1157
HpaII CCGG 3 cut(s) 84, 105, 848
HphI GGTGA 6 cut(s) 344, 506, 851, 863, 979, 1187
Hpy166II GTNNAC 4 cut(s) 370, 1340, 1367, 1400
Hpy188III TCNNGA 6 cut(s) 20, 84, 105, 1161, 1241, 1358
Hpy8I GTNNAC 4 cut(s) 370, 1340, 1367, 1400
Hpy99I CGWCG 1 cut(s) 983
HpyAV CCTTC 2 cut(s) 318, 545
HpyCH4III ACNGT 7 cut(s) 77, 194, 446, 989, 1048, 1238, 1397
HpyCH4IV ACGT 2 cut(s) 1108, 1402
HpyCH4V TGCA 8 cut(s) 686, 710, 758, 824, 857, 1060, 1181, 1211
HpyF3I CTNAG 2 cut(s) 387, 963
HpySE526I ACGT 2 cut(s) 1108, 1402
Hsp92II CATG 4 cut(s) 13, 1185, 1244, 1388
Kpn2I TCCGGA 2 cut(s) 83, 104
KspI CCGCGG 1 cut(s) 280
Kzo9I GATC 5 cut(s) 53, 262, 1120, 1198, 1260
LmnI GCTCC 5 cut(s) 46, 86, 685, 697, 949
Lsp1109I GCAGC 3 cut(s) 676, 698, 1195
LweI GCATC 3 cut(s) 745, 844, 1168
MaeI CTAG 3 cut(s) 57, 1011, 1293
MaeII ACGT 2 cut(s) 1108, 1402
MaeIII GTNAC 6 cut(s) 188, 392, 644, 719, 1001, 1042
MalI GATC 5 cut(s) 55, 264, 1122, 1200, 1262
MbiI CCGCTC 1 cut(s) 41
MboI GATC 5 cut(s) 53, 262, 1120, 1198, 1260
MboII GAAGA 3 cut(s) 393, 666, 1208
MflI RGATCY 2 cut(s) 53, 1198
MhlI GDGCHC 1 cut(s) 946
MlsI TGGCCA 1 cut(s) 1129
MluCI AATT 5 cut(s) 520, 742, 1014, 1143, 1351
MluNI TGGCCA 1 cut(s) 1129
MlyI GAGTC 1 cut(s) 1166
Mox20I TGGCCA 1 cut(s) 1129
Mph1103I ATGCAT 1 cut(s) 1183
MroI TCCGGA 2 cut(s) 83, 104
MroXI GAANNNNTTC 1 cut(s) 1396
MscI TGGCCA 1 cut(s) 1129
MslI CAYNNNNRTG 1 cut(s) 1383
Msp20I TGGCCA 1 cut(s) 1129
MspA1I CMGCKG 3 cut(s) 279, 689, 1220
MspI CCGG 3 cut(s) 84, 105, 848
MspR9I CCNGG 2 cut(s) 354, 849
MvaI CCWGG 1 cut(s) 354
MvnI CGCG 1 cut(s) 279
NciI CCSGG 1 cut(s) 849
NdeII GATC 5 cut(s) 53, 262, 1120, 1198, 1260
NlaIII CATG 4 cut(s) 13, 1185, 1244, 1388
NlaIV GGNNCC 6 cut(s) 37, 82, 103, 681, 957, 1290
NmuCI GTSAC 2 cut(s) 1001, 1042
NsiI ATGCAT 1 cut(s) 1183
NspI RCATGY 2 cut(s) 13, 1185
PagI TCATGA 1 cut(s) 1240
PaqCI CACCTGC 2 cut(s) 701, 815
PdmI GAANNNNTTC 1 cut(s) 1396
PfeI GAWTC 1 cut(s) 1095
PflMI CCANNNNNTGG 3 cut(s) 359, 704, 812
Ple19I CGATCG 1 cut(s) 265
PleI GAGTC 1 cut(s) 1165
PpsI GAGTC 1 cut(s) 1165
PsiI TTATAA 1 cut(s) 465
Psp6I CCWGG 1 cut(s) 352
PspEI GGTNACC 1 cut(s) 644
PspGI CCWGG 1 cut(s) 352
PspN4I GGNNCC 6 cut(s) 37, 82, 103, 681, 957, 1290
PspPI GGNCC 6 cut(s) 788, 818, 845, 878, 955, 1367
PsrI GAACNNNNNNTAC 2 cut(s) 616, 648
PstI CTGCAG 2 cut(s) 688, 826
PsuI RGATCY 2 cut(s) 53, 1198
PvuI CGATCG 1 cut(s) 265
PvuII CAGCTG 2 cut(s) 689, 1220
RsaI GTAC 3 cut(s) 406, 734, 1115
RsaNI GTAC 3 cut(s) 405, 733, 1114
RseI CAYNNNNRTG 1 cut(s) 1383
SacII CCGCGG 1 cut(s) 280
Sau3AI GATC 5 cut(s) 53, 262, 1120, 1198, 1260
Sau96I GGNCC 6 cut(s) 788, 818, 845, 878, 955, 1367
SbfI CCTGCAGG 1 cut(s) 826
SchI GAGTC 1 cut(s) 1166
ScrFI CCNGG 2 cut(s) 354, 849
SdaI CCTGCAGG 1 cut(s) 826
SduI GDGCHC 1 cut(s) 946
SfaNI GCATC 3 cut(s) 745, 844, 1168
SfcI CTRYAG 3 cut(s) 684, 822, 948
Sfr303I CCGCGG 1 cut(s) 280
SgrBI CCGCGG 1 cut(s) 280
SinI GGWCC 3 cut(s) 818, 845, 1367
SmiMI CAYNNNNRTG 1 cut(s) 1383
Sse8387I CCTGCAGG 1 cut(s) 826
Sse9I AATT 5 cut(s) 520, 742, 1014, 1143, 1351
SspMI CTAG 3 cut(s) 57, 1011, 1293
StyD4I CCNGG 2 cut(s) 352, 847
StyI CCWWGG 2 cut(s) 649, 1292
TaaI ACNGT 7 cut(s) 77, 194, 446, 989, 1048, 1238, 1397
TaiI ACGT 2 cut(s) 1111, 1405
TaqI TCGA 6 cut(s) 214, 241, 535, 925, 1050, 1357
TasI AATT 5 cut(s) 520, 742, 1014, 1143, 1351
TauI GCSGC 9 cut(s) 30, 41, 63, 123, 177, 279, 294, 297, 300
TfiI GAWTC 1 cut(s) 1095
TscAI CASTG 3 cut(s) 325, 1130, 1270
TseFI GTSAC 2 cut(s) 1001, 1042
TseI GCWGC 3 cut(s) 686, 689, 1208
Tsp45I GTSAC 2 cut(s) 1001, 1042
TspDTI ATGAA 4 cut(s) 564, 786, 1068, 1209
TspGWI ACGGA 1 cut(s) 156
TspRI CASTG 3 cut(s) 325, 1130, 1270
Van91I CCANNNNNTGG 3 cut(s) 359, 704, 812
VpaK11BI GGWCC 3 cut(s) 818, 845, 1367
XagI CCTNNNNNAGG 1 cut(s) 351
XapI RAATTY 2 cut(s) 1014, 1143
XceI RCATGY 2 cut(s) 13, 1185
XmaJI CCTAGG 1 cut(s) 1292
XmnI GAANNNNTTC 1 cut(s) 1396
XspI CTAG 3 cut(s) 57, 1011, 1293
Zsp2I ATGCAT 1 cut(s) 1183
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.