Rw7G019540

Transcription initiation factor IIF subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr7
OG0001724
Physical Location & Seq
Forward (+)
21696159 .. 21699520
3362 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw7G019540.1

Sequence Viewer

Length: 1089 bp
ATGTTGCAAGGAAAGGAGTTTTCTGCTATTCCTGCTGGTTCGTGGTTCAACTTTAACAAGGTTGCACAATATAAGCAACTTACTCTAGAGGAAGCGGAAGAGAAGATGAACAATAGGAAAAAGACTCAAGATGGATATGAAAGATGGATGATGAAATTGGAACTAACGAACCTGGGACGCAAAAAAATGACTGGTGATGATGATGAGGGAAATTTCTCTGATAAAGGGGAGGAAGATGAGGAAGAAGAGACAGCAAGGAAAAATAGACTTGGTCTCAATAAAAAAGGTGGTGATGATGACGATGATGAAGGTGGAAATGAAGAAGATGACTTAGATGATGATAGCAGTGAGAAGGGTGATGATTGGGAGCATGAAGAAATATTCACCGATGATGATGAAGCTGTTGGTATTAATCCTGAGGAGAGAGAAGAATTCGAACCTGAGGTTCCAGCTCCTCCAGAAATTAAGCAGGATGATGACGATGATGATAATAATGAAGAGGAGGGTGGGCTCAGCAAATCAGGAAAAGAGTTGAAGAAGCAACTTGGGCGAAGTGGTGGCCTGAATGATTCAGATGCAGAGGACGACGACGACGACGACGATGATATGGATGATGATATTGCCTTGCCTCAAGCGCTTGCACCAAAGCAGAAGGATGCACCCAAACAGGAACCAGTTACAAGTCCTATTAAACCCGGGACTTCTGGATCTGCTGGTAAAGCAAACCCATCTGCCTCCAAGTCGGCGAAGGGAAAGAGAAAATTAAATGGTGATGACGCTAAAGCATCCAACAGTGCACCTCCCAAGAAGGTGAAGACCGAAAATGAGCAAAAATCAGTCAAAGAGGAGCCTGCTTCTGAAAGTAGTGTGCCTGCAAAAGGTACTGCTGCATCCTTGAAAACGGGTTCAACACCATCTGGTGGTCCTACAGGTCCTGTATCTGAGGAAGAAATTAGGGCAGTTTTGATGCAAAAGTCACCCATCACCACACGCGATCTTGAGAAGGATGCTTTTGCAGGAATCCTGAGGAAAATGTTTAGGATACAGAAGAACAATGGGATCAGCTATGTTGTATTGAGGGAGAAGTGA
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

362

Amino Acids

39.7

Weight (kDa)

4.46

Isoelectric Point (pI)

53.1

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TFIIF_alpha PF05793 3 - 334 3.8e-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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 920
AccII CGCG 1 cut(s) 993
AciI CCGC 1 cut(s) 95
AclWI GGATC 2 cut(s) 715, 1067
AcsI RAATTY 2 cut(s) 211, 431
AfaI GTAC 1 cut(s) 883
AfeI AGCGCT 1 cut(s) 636
AfiI CCNNNNNNNGG 2 cut(s) 878, 920
AgsI TTSAA 4 cut(s) 49, 535, 898, 909
AjnI CCWGG 1 cut(s) 171
AluBI AGCT 3 cut(s) 401, 452, 1065
AluI AGCT 3 cut(s) 401, 452, 1065
Alw21I GWGCWC 1 cut(s) 799
Alw26I GTCTC 2 cut(s) 242, 278
Alw44I GTGCAC 1 cut(s) 795
AlwI GGATC 2 cut(s) 715, 1067
AlwNI CAGNNNCTG 1 cut(s) 935
Ama87I CYCGRG 1 cut(s) 695
Aor51HI AGCGCT 1 cut(s) 636
AoxI GGCC 1 cut(s) 559
ApaLI GTGCAC 1 cut(s) 795
ApeKI GCWGC 1 cut(s) 887
ApoI RAATTY 2 cut(s) 211, 431
AseI ATTAAT 1 cut(s) 411
AspLEI GCGC 1 cut(s) 637
AspS9I GGNCC 2 cut(s) 923, 932
AsuC2I CCSGG 2 cut(s) 696, 697
AsuHPI GGTGA 8 cut(s) 206, 302, 368, 376, 782, 823, 969, 976
AsuII TTCGAA 1 cut(s) 435
AvaI CYCGRG 1 cut(s) 695
AvaII GGWCC 2 cut(s) 923, 932
AxyI CCTNAGG 3 cut(s) 417, 441, 1025
BaeGI GKGCMC 1 cut(s) 799
BanII GRGCYC 1 cut(s) 513
BbsI GAAGAC 1 cut(s) 821
Bbv12I GWGCWC 1 cut(s) 799
BbvI GCAGC 1 cut(s) 874
BccI CCATC 5 cut(s) 125, 138, 736, 922, 989
BciT130I CCWGG 1 cut(s) 173
BciVI GTATCC 1 cut(s) 1035
BcnI CCSGG 2 cut(s) 696, 697
BcoDI GTCTC 2 cut(s) 242, 278
BfaI CTAG 1 cut(s) 86
BfmI CTRYAG 1 cut(s) 927
BfoI RGCGCY 1 cut(s) 638
BfuI GTATCC 1 cut(s) 1035
BisI GCNGC 1 cut(s) 888
BlpI GCTNAGC 1 cut(s) 512
BlsI GCNGC 1 cut(s) 889
Bme1390I CCNGG 3 cut(s) 173, 696, 697
Bme18I GGWCC 2 cut(s) 923, 932
BmeT110I CYCGRG 1 cut(s) 695
BmgT120I GGNCC 2 cut(s) 923, 932
BmiI GGNNCC 3 cut(s) 447, 672, 849
BmrFI CCNGG 3 cut(s) 173, 696, 697
BmsI GCATC 6 cut(s) 565, 646, 794, 899, 957, 997
BpiI GAAGAC 1 cut(s) 821
BpmI CTGGAG 1 cut(s) 441
Bpu1102I GCTNAGC 1 cut(s) 512
Bpu14I TTCGAA 1 cut(s) 435
BpuEI CTTGAG 3 cut(s) 111, 615, 1019
BpuMI CCSGG 2 cut(s) 696, 697
BsaI GGTCTC 1 cut(s) 278
BsaJI CCNNGG 2 cut(s) 172, 695
Bsc4I CCNNNNNNNGG 2 cut(s) 878, 920
Bse1I ACTGG 2 cut(s) 196, 674
Bse21I CCTNAGG 3 cut(s) 417, 441, 1025
BseBI CCWGG 1 cut(s) 173
BseDI CCNNGG 2 cut(s) 172, 695
BseGI GGATG 7 cut(s) 153, 478, 616, 661, 785, 890, 1012
BseLI CCNNNNNNNGG 2 cut(s) 878, 920
BseMII CTCAG 5 cut(s) 408, 432, 526, 933, 1016
BseNI ACTGG 2 cut(s) 196, 674
BseRI GAGGAG 4 cut(s) 434, 444, 515, 860
BseSI GKGCMC 1 cut(s) 799
BseXI GCAGC 1 cut(s) 874
Bsh1236I CGCG 1 cut(s) 993
BshFI GGCC 1 cut(s) 561
BsiHKAI GWGCWC 1 cut(s) 799
BsiHKCI CYCGRG 1 cut(s) 695
BsiSI CCGG 1 cut(s) 696
BslFI GGGAC 2 cut(s) 189, 712
BslI CCNNNNNNNGG 2 cut(s) 878, 920
BsmAI GTCTC 2 cut(s) 242, 278
BsmFI GGGAC 2 cut(s) 189, 712
BsnI GGCC 1 cut(s) 561
Bso31I GGTCTC 1 cut(s) 278
BsoBI CYCGRG 1 cut(s) 695
Bsp119I TTCGAA 1 cut(s) 435
Bsp1286I GDGCHC 2 cut(s) 513, 799
Bsp143I GATC 3 cut(s) 707, 994, 1059
Bsp1720I GCTNAGC 1 cut(s) 512
BspACI CCGC 1 cut(s) 95
BspANI GGCC 1 cut(s) 561
BspCNI CTCAG 5 cut(s) 409, 433, 525, 934, 1017
BspFNI CGCG 1 cut(s) 993
BspLI GGNNCC 3 cut(s) 447, 672, 849
BspPI GGATC 2 cut(s) 715, 1067
BspT104I TTCGAA 1 cut(s) 435
BspTNI GGTCTC 1 cut(s) 278
BsrI ACTGG 2 cut(s) 196, 674
BssECI CCNNGG 2 cut(s) 172, 695
BssMI GATC 3 cut(s) 707, 994, 1059
Bst2UI CCWGG 1 cut(s) 173
Bst4CI ACNGT 1 cut(s) 794
Bst6I CTCTTC 3 cut(s) 93, 240, 492
BstBI TTCGAA 1 cut(s) 435
BstC8I GCNNGC 3 cut(s) 639, 852, 873
BstDEI CTNAG 6 cut(s) 331, 417, 441, 512, 942, 1025
BstENI CCTNNNNNAGG 1 cut(s) 876
BstF5I GGATG 7 cut(s) 153, 478, 616, 661, 785, 890, 1012
BstFNI CGCG 1 cut(s) 993
BstH2I RGCGCY 1 cut(s) 638
BstHHI GCGC 1 cut(s) 637
BstKTI GATC 3 cut(s) 710, 997, 1062
BstMAI GTCTC 2 cut(s) 242, 278
BstMBI GATC 3 cut(s) 707, 994, 1059
BstMWI GCNNNNNNNGC 4 cut(s) 32, 547, 634, 719
BstNI CCWGG 1 cut(s) 173
BstSCI CCNGG 3 cut(s) 171, 694, 695
BstSFI CTRYAG 1 cut(s) 927
BstSLI GKGCMC 1 cut(s) 799
BstUI CGCG 1 cut(s) 993
BstV1I GCAGC 1 cut(s) 874
BstV2I GAAGAC 1 cut(s) 821
BstX2I RGATCY 1 cut(s) 707
BstYI RGATCY 1 cut(s) 707
Bsu36I CCTNAGG 3 cut(s) 417, 441, 1025
BsuI GTATCC 1 cut(s) 1035
BsuRI GGCC 1 cut(s) 561
BtsCI GGATG 7 cut(s) 153, 478, 616, 661, 785, 890, 1012
BtsI GCAGTG 1 cut(s) 352
BtsIMutI CAGTG 2 cut(s) 352, 799
Cac8I GCNNGC 3 cut(s) 639, 852, 873
CaiI CAGNNNCTG 1 cut(s) 935
CfoI GCGC 1 cut(s) 637
Cfr13I GGNCC 2 cut(s) 923, 932
Cfr9I CCCGGG 1 cut(s) 695
CseI GACGC 2 cut(s) 186, 785
Csp6I GTAC 1 cut(s) 882
CviAII CATG 1 cut(s) 371
CviJI RGCY 6 cut(s) 401, 452, 511, 561, 850, 1065
CviKI_1 RGCY 6 cut(s) 401, 452, 511, 561, 850, 1065
CviQI GTAC 1 cut(s) 882
DdeI CTNAG 6 cut(s) 331, 417, 441, 512, 942, 1025
DpnI GATC 3 cut(s) 709, 996, 1061
DpnII GATC 3 cut(s) 707, 994, 1059
Eam1104I CTCTTC 3 cut(s) 93, 240, 492
EarI CTCTTC 3 cut(s) 93, 240, 492
Eco24I GRGCYC 1 cut(s) 513
Eco31I GGTCTC 1 cut(s) 278
Eco47I GGWCC 2 cut(s) 923, 932
Eco47III AGCGCT 1 cut(s) 636
Eco81I CCTNAGG 3 cut(s) 417, 441, 1025
Eco88I CYCGRG 1 cut(s) 695
EcoNI CCTNNNNNAGG 1 cut(s) 876
EcoO109I RGGNCCY 1 cut(s) 932
EcoRI GAATTC 1 cut(s) 431
EcoRII CCWGG 1 cut(s) 171
EcoT38I GRGCYC 1 cut(s) 513
FaeI CATG 1 cut(s) 374
FaiI YATR 5 cut(s) 72, 138, 372, 608, 1068
FaqI GGGAC 2 cut(s) 189, 712
FatI CATG 1 cut(s) 370
Fnu4HI GCNGC 1 cut(s) 888
FokI GGATG 7 cut(s) 160, 485, 623, 668, 772, 877, 1019
FriOI GRGCYC 1 cut(s) 513
Fsp4HI GCNGC 1 cut(s) 888
FspBI CTAG 1 cut(s) 86
GlaI GCGC 1 cut(s) 636
GluI GCNGC 1 cut(s) 888
GsuI CTGGAG 1 cut(s) 441
HaeII RGCGCY 1 cut(s) 638
HaeIII GGCC 1 cut(s) 561
HapII CCGG 1 cut(s) 696
HgaI GACGC 2 cut(s) 186, 785
HhaI GCGC 1 cut(s) 637
Hin1II CATG 1 cut(s) 374
Hin6I GCGC 1 cut(s) 635
HinP1I GCGC 1 cut(s) 635
HinfI GANTC 3 cut(s) 124, 569, 1020
HpaII CCGG 1 cut(s) 696
HphI GGTGA 8 cut(s) 206, 302, 368, 376, 782, 823, 969, 976
Hpy166II GTNNAC 1 cut(s) 797
Hpy188I TCNGA 4 cut(s) 220, 574, 859, 943
Hpy188III TCNNGA 8 cut(s) 86, 128, 416, 458, 522, 705, 998, 1024
Hpy8I GTNNAC 1 cut(s) 797
Hpy99I CGWCG 5 cut(s) 590, 593, 596, 599, 602
HpyAV CCTTC 6 cut(s) 302, 346, 646, 742, 802, 997
HpyCH4III ACNGT 1 cut(s) 794
HpyF10VI GCNNNNNNNGC 4 cut(s) 32, 547, 634, 719
HpyF3I CTNAG 6 cut(s) 331, 417, 441, 512, 942, 1025
Hsp92II CATG 1 cut(s) 374
HspAI GCGC 1 cut(s) 635
Kzo9I GATC 3 cut(s) 707, 994, 1059
LmnI GCTCC 3 cut(s) 367, 457, 847
Lsp1109I GCAGC 1 cut(s) 874
LweI GCATC 6 cut(s) 565, 646, 794, 899, 957, 997
MaeI CTAG 1 cut(s) 86
MaeIII GTNAC 2 cut(s) 676, 975
MalI GATC 3 cut(s) 709, 996, 1061
MboI GATC 3 cut(s) 707, 994, 1059
MflI RGATCY 1 cut(s) 707
MhlI GDGCHC 2 cut(s) 513, 799
MluCI AATT 6 cut(s) 155, 211, 431, 462, 761, 951
MlyI GAGTC 1 cut(s) 118
MmeI TCCRAC 1 cut(s) 813
MseI TTAA 5 cut(s) 54, 411, 465, 690, 764
MspI CCGG 1 cut(s) 696
MspR9I CCNGG 3 cut(s) 173, 696, 697
MvaI CCWGG 1 cut(s) 173
MvnI CGCG 1 cut(s) 993
MwoI GCNNNNNNNGC 4 cut(s) 32, 547, 634, 719
NciI CCSGG 2 cut(s) 696, 697
NdeII GATC 3 cut(s) 707, 994, 1059
NlaIII CATG 1 cut(s) 374
NlaIV GGNNCC 3 cut(s) 447, 672, 849
NmuCI GTSAC 1 cut(s) 975
NspV TTCGAA 1 cut(s) 435
PcsI WCGNNNNNNNCGW 3 cut(s) 591, 594, 597
PfeI GAWTC 2 cut(s) 569, 1020
PflFI GACNNNGTC 1 cut(s) 270
PflMI CCANNNNNTGG 1 cut(s) 920
PkrI GCNGC 1 cut(s) 889
PleI GAGTC 1 cut(s) 118
PpsI GAGTC 1 cut(s) 118
PpuMI RGGWCCY 1 cut(s) 932
PshBI ATTAAT 1 cut(s) 411
Psp5II RGGWCCY 1 cut(s) 932
Psp6I CCWGG 1 cut(s) 171
PspGI CCWGG 1 cut(s) 171
PspN4I GGNNCC 3 cut(s) 447, 672, 849
PspPI GGNCC 2 cut(s) 923, 932
PspPPI RGGWCCY 1 cut(s) 932
PstNI CAGNNNCTG 1 cut(s) 935
PsuI RGATCY 1 cut(s) 707
PsyI GACNNNGTC 1 cut(s) 270
RsaI GTAC 1 cut(s) 883
RsaNI GTAC 1 cut(s) 882
SaqAI TTAA 5 cut(s) 54, 411, 465, 690, 764
SatI GCNGC 1 cut(s) 888
Sau3AI GATC 3 cut(s) 707, 994, 1059
Sau96I GGNCC 2 cut(s) 923, 932
SchI GAGTC 1 cut(s) 118
ScrFI CCNGG 3 cut(s) 173, 696, 697
SduI GDGCHC 2 cut(s) 513, 799
SfaNI GCATC 6 cut(s) 565, 646, 794, 899, 957, 997
SfcI CTRYAG 1 cut(s) 927
SfuI TTCGAA 1 cut(s) 435
SinI GGWCC 2 cut(s) 923, 932
SmaI CCCGGG 1 cut(s) 697
SmlI CTYRAG 3 cut(s) 126, 630, 998
SmoI CTYRAG 3 cut(s) 126, 630, 998
Sse9I AATT 6 cut(s) 155, 211, 431, 462, 761, 951
SsiI CCGC 1 cut(s) 95
SspI AATATT 1 cut(s) 381
SspMI CTAG 1 cut(s) 86
StyD4I CCNGG 3 cut(s) 171, 694, 695
TaaI ACNGT 1 cut(s) 794
TaqI TCGA 1 cut(s) 435
TaqII GACCGA 1 cut(s) 833
TasI AATT 6 cut(s) 155, 211, 431, 462, 761, 951
TfiI GAWTC 2 cut(s) 569, 1020
Tru1I TTAA 5 cut(s) 54, 411, 465, 690, 764
Tru9I TTAA 5 cut(s) 54, 411, 465, 690, 764
TscAI CASTG 2 cut(s) 352, 799
TseFI GTSAC 1 cut(s) 975
TseI GCWGC 1 cut(s) 887
Tsp45I GTSAC 1 cut(s) 975
TspDTI ATGAA 8 cut(s) 122, 153, 167, 321, 333, 387, 411, 510
TspMI CCCGGG 1 cut(s) 695
TspRI CASTG 2 cut(s) 352, 799
Tth111I GACNNNGTC 1 cut(s) 270
Van91I CCANNNNNTGG 1 cut(s) 920
VneI GTGCAC 1 cut(s) 795
VpaK11BI GGWCC 2 cut(s) 923, 932
VspI ATTAAT 1 cut(s) 411
XagI CCTNNNNNAGG 1 cut(s) 876
XapI RAATTY 2 cut(s) 211, 431
XbaI TCTAGA 1 cut(s) 85
XmaI CCCGGG 1 cut(s) 695
XspI CTAG 1 cut(s) 86
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.