Rw0G005580

Transcription initiation factor IIF subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Contig00222
OG0001724
Physical Location & Seq
Reverse (-)
11230 .. 14595
3366 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw0G005580.1

Sequence Viewer

Length: 1101 bp
ATGTTGCAAGGAAAGGAGTTTTCTGCTATTCCTGCTGGTTCGTGGTTCAACTTTAACAAGGTTGCACAATATAAGCAACTTACTCTAGAGGAAGCGGAAGAGAAGATGAACAATAGGAAAAAGACTCAAGATGGATATGAAAGATGGATGATGAAATTGGAACTAACGAACCTGGTCCACTTCGGACGCAAAAAAATGACTGGTGATGATGATGAGGGAAATTTCTCTGATAAAGGGGAGGAAGATGAGGAAGAAGAGACAGCAAGGAAAAATAGACTTGGTCTCAATAAAAAAGGTGGTGATGATGACGATGATGAAGGTGGAAATGAAGAAGATGACTTAGATGATGATAGCAGTGAGAAGGGTGATGATTGGAAGCATGAAGAAATATTCACCGATGATGATGAAGCTGTTGGTATTAATCCTGAGGAGAGAGAAGAATTCGAACCTGAGGTTCCAGCTCCTCCAGAAATTAAGCAGGATGATGACGATGATGATAATAATGAAGAGGAGGGTGGGCTCAGCAAATCAGGAAAAGAGTTGAAGAAGCAACTTGGGCGAAGTGGTGGCCTGAATGATTCAGATGCAGAGGACGACGACGATGACGACGATGATATGGATGATGATATTGCCTTGCCTCAAGCGCTTGCACCAAAGCAGAAGGGCGCACCCAAACAGGAACCAGTTGACAACAGTCCTATTAAACCCGGGACTTCTGGATCTGTTGCTAAAGCAAACCCATCTGCCTCCAAGTCGGCGAAGGGAAAGAGAAAATTAAATGGTGATGACGCTAAAGCATCCAACAGTGCGCCTCCCAAGAAGGTGAAGACCGAAAATGAGCAAAAATCAGTCAAAGAGGAGCCTGCTTCTGAAAGTAGTGTGCCTGCAAAAGGTACTGCTGCATCCTCGAAAACGGGTTCAACACCATCTGGTGGTCCTACAGGTCCTGTATCTGAGGAAGAAATTAGGGCAGTTTTGATGCAAAAGTCACCCATCACCACACGCGATCTTGAGAAGGATGCTTTTGCAGCAATCCTGAGGAAAATGTTTAGGATACAGAAGAACAATGGGATCAGCTATGTTGTATTGAGGGAGAAGTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0003674 GO:0005488 GO:0005515 GO:0008022
KEGG Pathways
Metabolic & Signaling
ko03022 map03022
Pfam Domains
Protein Families
TFIIF_alpha

Protein Analysis

366

Amino Acids

40.19

Weight (kDa)

4.51

Isoelectric Point (pI)

53.13

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TFIIF_alpha PF05793 3 - 338 1.7e-70 Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 932
AccII CGCG 1 cut(s) 1005
AciI CCGC 1 cut(s) 95
AclWI GGATC 2 cut(s) 727, 1079
AcsI RAATTY 2 cut(s) 220, 440
AfaI GTAC 1 cut(s) 895
AfeI AGCGCT 1 cut(s) 645
AfiI CCNNNNNNNGG 2 cut(s) 890, 932
AgsI TTSAA 3 cut(s) 49, 544, 921
AjnI CCWGG 1 cut(s) 171
AluBI AGCT 3 cut(s) 410, 461, 1077
AluI AGCT 3 cut(s) 410, 461, 1077
Alw26I GTCTC 2 cut(s) 251, 287
AlwI GGATC 2 cut(s) 727, 1079
AlwNI CAGNNNCTG 1 cut(s) 947
Ama87I CYCGRG 1 cut(s) 707
Aor51HI AGCGCT 1 cut(s) 645
AoxI GGCC 1 cut(s) 568
ApeKI GCWGC 2 cut(s) 899, 1028
ApoI RAATTY 2 cut(s) 220, 440
AseI ATTAAT 1 cut(s) 420
AspLEI GCGC 3 cut(s) 646, 668, 811
AspS9I GGNCC 3 cut(s) 175, 935, 944
AsuC2I CCSGG 2 cut(s) 708, 709
AsuHPI GGTGA 8 cut(s) 215, 311, 377, 385, 794, 835, 981, 988
AsuII TTCGAA 1 cut(s) 444
AvaI CYCGRG 1 cut(s) 707
AvaII GGWCC 3 cut(s) 175, 935, 944
AxyI CCTNAGG 3 cut(s) 426, 450, 1037
BanII GRGCYC 1 cut(s) 522
BbsI GAAGAC 1 cut(s) 833
BbvI GCAGC 2 cut(s) 886, 1040
BccI CCATC 5 cut(s) 125, 138, 748, 934, 1001
BciT130I CCWGG 1 cut(s) 173
BciVI GTATCC 1 cut(s) 1047
BcnI CCSGG 2 cut(s) 708, 709
BcoDI GTCTC 2 cut(s) 251, 287
BfaI CTAG 1 cut(s) 86
BfmI CTRYAG 1 cut(s) 939
BfoI RGCGCY 1 cut(s) 647
BfuI GTATCC 1 cut(s) 1047
BisI GCNGC 2 cut(s) 900, 1029
BlpI GCTNAGC 1 cut(s) 521
BlsI GCNGC 2 cut(s) 901, 1030
Bme1390I CCNGG 3 cut(s) 173, 708, 709
Bme18I GGWCC 3 cut(s) 175, 935, 944
BmeT110I CYCGRG 1 cut(s) 707
BmgT120I GGNCC 3 cut(s) 175, 935, 944
BmiI GGNNCC 3 cut(s) 456, 681, 861
BmrFI CCNGG 3 cut(s) 173, 708, 709
BmsI GCATC 5 cut(s) 574, 806, 911, 969, 1009
BoxI GACNNNNGTC 1 cut(s) 693
BpiI GAAGAC 1 cut(s) 833
BpmI CTGGAG 1 cut(s) 450
Bpu1102I GCTNAGC 1 cut(s) 521
Bpu14I TTCGAA 1 cut(s) 444
BpuEI CTTGAG 3 cut(s) 111, 624, 1031
BpuMI CCSGG 2 cut(s) 708, 709
BsaI GGTCTC 1 cut(s) 287
BsaJI CCNNGG 1 cut(s) 707
Bsc4I CCNNNNNNNGG 2 cut(s) 890, 932
Bse1I ACTGG 2 cut(s) 205, 683
Bse21I CCTNAGG 3 cut(s) 426, 450, 1037
BseBI CCWGG 1 cut(s) 173
BseDI CCNNGG 1 cut(s) 707
BseGI GGATG 6 cut(s) 153, 487, 625, 797, 902, 1024
BseLI CCNNNNNNNGG 2 cut(s) 890, 932
BseMII CTCAG 5 cut(s) 417, 441, 535, 945, 1028
BseNI ACTGG 2 cut(s) 205, 683
BseRI GAGGAG 4 cut(s) 443, 453, 524, 872
BseXI GCAGC 2 cut(s) 886, 1040
Bsh1236I CGCG 1 cut(s) 1005
BshFI GGCC 1 cut(s) 570
BsiHKCI CYCGRG 1 cut(s) 707
BsiSI CCGG 1 cut(s) 708
BslFI GGGAC 1 cut(s) 724
BslI CCNNNNNNNGG 2 cut(s) 890, 932
BsmAI GTCTC 2 cut(s) 251, 287
BsmFI GGGAC 1 cut(s) 724
BsnI GGCC 1 cut(s) 570
Bso31I GGTCTC 1 cut(s) 287
BsoBI CYCGRG 1 cut(s) 707
Bsp119I TTCGAA 1 cut(s) 444
Bsp1286I GDGCHC 1 cut(s) 522
Bsp143I GATC 3 cut(s) 719, 1006, 1071
Bsp1720I GCTNAGC 1 cut(s) 521
BspACI CCGC 1 cut(s) 95
BspANI GGCC 1 cut(s) 570
BspCNI CTCAG 5 cut(s) 418, 442, 534, 946, 1029
BspFNI CGCG 1 cut(s) 1005
BspLI GGNNCC 3 cut(s) 456, 681, 861
BspPI GGATC 2 cut(s) 727, 1079
BspT104I TTCGAA 1 cut(s) 444
BspTNI GGTCTC 1 cut(s) 287
BsrI ACTGG 2 cut(s) 205, 683
BssECI CCNNGG 1 cut(s) 707
BssMI GATC 3 cut(s) 719, 1006, 1071
Bst2UI CCWGG 1 cut(s) 173
Bst4CI ACNGT 2 cut(s) 695, 806
Bst6I CTCTTC 3 cut(s) 93, 249, 501
BstBI TTCGAA 1 cut(s) 444
BstC8I GCNNGC 3 cut(s) 648, 864, 885
BstDEI CTNAG 6 cut(s) 340, 426, 450, 521, 954, 1037
BstENI CCTNNNNNAGG 1 cut(s) 888
BstF5I GGATG 6 cut(s) 153, 487, 625, 797, 902, 1024
BstFNI CGCG 1 cut(s) 1005
BstH2I RGCGCY 1 cut(s) 647
BstHHI GCGC 3 cut(s) 646, 668, 811
BstKTI GATC 3 cut(s) 722, 1009, 1074
BstMAI GTCTC 2 cut(s) 251, 287
BstMBI GATC 3 cut(s) 719, 1006, 1071
BstMWI GCNNNNNNNGC 4 cut(s) 32, 556, 643, 1028
BstNI CCWGG 1 cut(s) 173
BstPAI GACNNNNGTC 1 cut(s) 693
BstSCI CCNGG 3 cut(s) 171, 706, 707
BstSFI CTRYAG 1 cut(s) 939
BstUI CGCG 1 cut(s) 1005
BstV1I GCAGC 2 cut(s) 886, 1040
BstV2I GAAGAC 1 cut(s) 833
BstX2I RGATCY 1 cut(s) 719
BstYI RGATCY 1 cut(s) 719
Bsu36I CCTNAGG 3 cut(s) 426, 450, 1037
BsuI GTATCC 1 cut(s) 1047
BsuRI GGCC 1 cut(s) 570
BtsCI GGATG 6 cut(s) 153, 487, 625, 797, 902, 1024
BtsI GCAGTG 1 cut(s) 361
BtsIMutI CAGTG 2 cut(s) 361, 811
Cac8I GCNNGC 3 cut(s) 648, 864, 885
CaiI CAGNNNCTG 1 cut(s) 947
CfoI GCGC 3 cut(s) 646, 668, 811
Cfr13I GGNCC 3 cut(s) 175, 935, 944
Cfr9I CCCGGG 1 cut(s) 707
CseI GACGC 2 cut(s) 195, 797
CsiI ACCWGGT 1 cut(s) 171
Csp6I GTAC 1 cut(s) 894
CviAII CATG 1 cut(s) 380
CviJI RGCY 6 cut(s) 410, 461, 520, 570, 862, 1077
CviKI_1 RGCY 6 cut(s) 410, 461, 520, 570, 862, 1077
CviQI GTAC 1 cut(s) 894
DdeI CTNAG 6 cut(s) 340, 426, 450, 521, 954, 1037
DpnI GATC 3 cut(s) 721, 1008, 1073
DpnII GATC 3 cut(s) 719, 1006, 1071
Eam1104I CTCTTC 3 cut(s) 93, 249, 501
EarI CTCTTC 3 cut(s) 93, 249, 501
Eco24I GRGCYC 1 cut(s) 522
Eco31I GGTCTC 1 cut(s) 287
Eco47I GGWCC 3 cut(s) 175, 935, 944
Eco47III AGCGCT 1 cut(s) 645
Eco81I CCTNAGG 3 cut(s) 426, 450, 1037
Eco88I CYCGRG 1 cut(s) 707
EcoNI CCTNNNNNAGG 1 cut(s) 888
EcoO109I RGGNCCY 1 cut(s) 944
EcoRI GAATTC 1 cut(s) 440
EcoRII CCWGG 1 cut(s) 171
EcoT38I GRGCYC 1 cut(s) 522
FaeI CATG 1 cut(s) 383
FaiI YATR 5 cut(s) 72, 138, 381, 617, 1080
FaqI GGGAC 1 cut(s) 724
FatI CATG 1 cut(s) 379
Fnu4HI GCNGC 2 cut(s) 900, 1029
FokI GGATG 6 cut(s) 160, 494, 632, 784, 889, 1031
FriOI GRGCYC 1 cut(s) 522
Fsp4HI GCNGC 2 cut(s) 900, 1029
FspBI CTAG 1 cut(s) 86
GlaI GCGC 3 cut(s) 645, 667, 810
GluI GCNGC 2 cut(s) 900, 1029
GsuI CTGGAG 1 cut(s) 450
HaeII RGCGCY 1 cut(s) 647
HaeIII GGCC 1 cut(s) 570
HapII CCGG 1 cut(s) 708
HgaI GACGC 2 cut(s) 195, 797
HhaI GCGC 3 cut(s) 646, 668, 811
Hin1II CATG 1 cut(s) 383
Hin6I GCGC 3 cut(s) 644, 666, 809
HinP1I GCGC 3 cut(s) 644, 666, 809
HincII GTYRAC 1 cut(s) 688
HindII GTYRAC 1 cut(s) 688
HinfI GANTC 2 cut(s) 124, 578
HpaII CCGG 1 cut(s) 708
HphI GGTGA 8 cut(s) 215, 311, 377, 385, 794, 835, 981, 988
Hpy166II GTNNAC 2 cut(s) 178, 688
Hpy188I TCNGA 5 cut(s) 185, 229, 583, 871, 955
Hpy188III TCNNGA 8 cut(s) 86, 128, 425, 467, 531, 717, 1010, 1036
Hpy8I GTNNAC 2 cut(s) 178, 688
Hpy99I CGWCG 3 cut(s) 599, 602, 611
HpyAV CCTTC 6 cut(s) 311, 355, 655, 754, 814, 1009
HpyCH4III ACNGT 2 cut(s) 695, 806
HpyCH4V TGCA 8 cut(s) 7, 65, 587, 650, 887, 902, 982, 1028
HpyF10VI GCNNNNNNNGC 4 cut(s) 32, 556, 643, 1028
HpyF3I CTNAG 6 cut(s) 340, 426, 450, 521, 954, 1037
Hsp92II CATG 1 cut(s) 383
HspAI GCGC 3 cut(s) 644, 666, 809
Kzo9I GATC 3 cut(s) 719, 1006, 1071
LmnI GCTCC 2 cut(s) 466, 859
Lsp1109I GCAGC 2 cut(s) 886, 1040
LweI GCATC 5 cut(s) 574, 806, 911, 969, 1009
MabI ACCWGGT 1 cut(s) 171
MaeI CTAG 1 cut(s) 86
MaeIII GTNAC 1 cut(s) 987
MalI GATC 3 cut(s) 721, 1008, 1073
MboI GATC 3 cut(s) 719, 1006, 1071
MflI RGATCY 1 cut(s) 719
MhlI GDGCHC 1 cut(s) 522
MluCI AATT 6 cut(s) 155, 220, 440, 471, 773, 963
MlyI GAGTC 1 cut(s) 118
MmeI TCCRAC 1 cut(s) 825
MseI TTAA 5 cut(s) 54, 420, 474, 702, 776
MspI CCGG 1 cut(s) 708
MspR9I CCNGG 3 cut(s) 173, 708, 709
MvaI CCWGG 1 cut(s) 173
MvnI CGCG 1 cut(s) 1005
MwoI GCNNNNNNNGC 4 cut(s) 32, 556, 643, 1028
NciI CCSGG 2 cut(s) 708, 709
NdeII GATC 3 cut(s) 719, 1006, 1071
NlaIII CATG 1 cut(s) 383
NlaIV GGNNCC 3 cut(s) 456, 681, 861
NmuCI GTSAC 1 cut(s) 987
NspV TTCGAA 1 cut(s) 444
PcsI WCGNNNNNNNCGW 2 cut(s) 603, 606
PfeI GAWTC 1 cut(s) 578
PflFI GACNNNGTC 1 cut(s) 279
PflMI CCANNNNNTGG 1 cut(s) 932
PkrI GCNGC 2 cut(s) 901, 1030
PleI GAGTC 1 cut(s) 118
PpsI GAGTC 1 cut(s) 118
PpuMI RGGWCCY 1 cut(s) 944
PshAI GACNNNNGTC 1 cut(s) 693
PshBI ATTAAT 1 cut(s) 420
Psp5II RGGWCCY 1 cut(s) 944
Psp6I CCWGG 1 cut(s) 171
PspGI CCWGG 1 cut(s) 171
PspN4I GGNNCC 3 cut(s) 456, 681, 861
PspPI GGNCC 3 cut(s) 175, 935, 944
PspPPI RGGWCCY 1 cut(s) 944
PstNI CAGNNNCTG 1 cut(s) 947
PsuI RGATCY 1 cut(s) 719
PsyI GACNNNGTC 1 cut(s) 279
RsaI GTAC 1 cut(s) 895
RsaNI GTAC 1 cut(s) 894
SaqAI TTAA 5 cut(s) 54, 420, 474, 702, 776
SatI GCNGC 2 cut(s) 900, 1029
Sau3AI GATC 3 cut(s) 719, 1006, 1071
Sau96I GGNCC 3 cut(s) 175, 935, 944
SchI GAGTC 1 cut(s) 118
ScrFI CCNGG 3 cut(s) 173, 708, 709
SduI GDGCHC 1 cut(s) 522
SexAI ACCWGGT 1 cut(s) 171
SfaNI GCATC 5 cut(s) 574, 806, 911, 969, 1009
SfcI CTRYAG 1 cut(s) 939
SfuI TTCGAA 1 cut(s) 444
SinI GGWCC 3 cut(s) 175, 935, 944
SmaI CCCGGG 1 cut(s) 709
SmlI CTYRAG 3 cut(s) 126, 639, 1010
SmoI CTYRAG 3 cut(s) 126, 639, 1010
Sse9I AATT 6 cut(s) 155, 220, 440, 471, 773, 963
SsiI CCGC 1 cut(s) 95
SspI AATATT 1 cut(s) 390
SspMI CTAG 1 cut(s) 86
StyD4I CCNGG 3 cut(s) 171, 706, 707
TaaI ACNGT 2 cut(s) 695, 806
TaqI TCGA 2 cut(s) 444, 908
TaqII GACCGA 1 cut(s) 845
TasI AATT 6 cut(s) 155, 220, 440, 471, 773, 963
TfiI GAWTC 1 cut(s) 578
Tru1I TTAA 5 cut(s) 54, 420, 474, 702, 776
Tru9I TTAA 5 cut(s) 54, 420, 474, 702, 776
TscAI CASTG 2 cut(s) 361, 811
TseFI GTSAC 1 cut(s) 987
TseI GCWGC 2 cut(s) 899, 1028
Tsp45I GTSAC 1 cut(s) 987
TspDTI ATGAA 8 cut(s) 122, 153, 167, 330, 342, 396, 420, 519
TspMI CCCGGG 1 cut(s) 707
TspRI CASTG 2 cut(s) 361, 811
Tth111I GACNNNGTC 1 cut(s) 279
Van91I CCANNNNNTGG 1 cut(s) 932
VpaK11BI GGWCC 3 cut(s) 175, 935, 944
VspI ATTAAT 1 cut(s) 420
XagI CCTNNNNNAGG 1 cut(s) 888
XapI RAATTY 2 cut(s) 220, 440
XbaI TCTAGA 1 cut(s) 85
XmaI CCCGGG 1 cut(s) 707
XspI CTAG 1 cut(s) 86
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.