Rroxscaffold_7G00179460

Transcription initiation factor IIF subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000007
OG0001724
Physical Location & Seq
Forward (+)
19026851 .. 19029022
2172 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_7G00179460.1

Sequence Viewer

Length: 1155 bp
ATGACAACGGATTTGGTGCTGAAGCTTTCATGTATCGGCTGCGGTTCATCCTCCGACTTGCACGGAAGCGGCTGCAAGCACTTGACTCTCTGCTTGTCATGTGGCAGATCAATGGCTCAGCAGAAAGCCAAGTGCTTTCACTGTGGTGCTGTTCTCACCCGCTTGATTCGAGAGCATGATGTTGTGCGTGCAAACAATGATGACAAGAACTACTTCATCGGTAGATTCTCGACAGGACTGCCCAACTTCTCCAAGAACAAGTCTCTCTGTAAAAACAAGGATAAGCCGTGGGTCTTGGAGGATGAGACTGGACGGTCCGAGTACCAGGGCCATCTTCAAGAATTGTTTTCAGCTTACTACCTACTAATGCAAGAAGGAGAGGAGATTTCTGCTGTTCCCGCTGGTTCCTGGTTCAACTTTGACAAAGTTGCACAGTATAATAAGCAACCTACTTTGGAGGAAGCCGAAGCAAAGATGATCAATAAGAAAAAGACGCAAGATTTATATCAAAGAAGGCTTATGAAAGCTGCAACTAATGGAGCTGTTGCATTTGGAAAAGTGAACAAATTTGGTGGCAAGGATAGCAAACAAAAAACTTGTTTTGATGATGATGAAGGGAACATCTCAGATAATGATGATGAGGAACAAGAGGGAACAAGGAAAAATAGACTTGGACTCAAGAGAAGAGGTGGTGATGATGAAGGAAACATCTCAGATAATAGTGATGAGGAAGAAGATGTAGCAAAGAAAAACAGACTTGAACTCGAGAGAACAGGTGGCGATGATGAAGGTACAAGTGGAGATGATGACTTTGATAATGATGATAGTGAGAAGGATGATGACTGGAAGCTTGAGGAGATTTGCAGCGATGATGATGAAAATAATACCAAGGAAATAGAAGACTTTGCAACCGAGGATGATGAGGAAGATGATAATAATGAAGAGGAGGGTGGACTCGGTGAATCCGGAAAAGAATTGAAGAAGCTACTAGGGCACCTCACCGAGTCGAAACACAGGATGACGACGAAACCGAGGACAACAGTCATTCCGGATCGGCTCGGGACTACCCCATCTACCTCCAAGCCATCCAAAGGGATGAGAAAACGATATGATGATGATGCCAAGGCATTTAGCCGTGCACCTCCCCGAAGTTGA
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

384

Amino Acids

43.04

Weight (kDa)

4.89

Isoelectric Point (pI)

45.77

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TFIIF_alpha PF05793 91 - 337 1.4e-30 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)
AasI GACNNNNNNGTC 1 cut(s) 313
AccB1I GGYRCC 1 cut(s) 993
AccIII TCCGGA 2 cut(s) 965, 1048
AciI CCGC 4 cut(s) 42, 69, 160, 399
AclWI GGATC 1 cut(s) 1059
AcsI RAATTY 1 cut(s) 566
AcuI CTGAAG 1 cut(s) 41
AfaI GTAC 2 cut(s) 323, 793
AfiI CCNNNNNNNGG 1 cut(s) 1091
AgsI TTSAA 4 cut(s) 338, 415, 761, 979
AjnI CCWGG 2 cut(s) 324, 407
AleI CACNNNNGTG 1 cut(s) 144
AluBI AGCT 6 cut(s) 25, 353, 527, 542, 850, 985
AluI AGCT 6 cut(s) 25, 353, 527, 542, 850, 985
Alw21I GWGCWC 1 cut(s) 1141
Alw26I GTCTC 2 cut(s) 267, 299
Alw44I GTGCAC 1 cut(s) 1137
AlwI GGATC 1 cut(s) 1059
Ama87I CYCGRG 2 cut(s) 764, 1058
Aor13HI TCCGGA 2 cut(s) 965, 1048
AoxI GGCC 1 cut(s) 328
ApaLI GTGCAC 1 cut(s) 1137
ApeKI GCWGC 4 cut(s) 39, 72, 527, 864
ApoI RAATTY 1 cut(s) 566
ArsI GACNNNNNNTTYG 1 cut(s) 27
Asp700I GAANNNNTTC 1 cut(s) 212
AspS9I GGNCC 2 cut(s) 315, 328
AsuHPI GGTGA 4 cut(s) 148, 704, 971, 991
AvaI CYCGRG 2 cut(s) 764, 1058
AvaII GGWCC 1 cut(s) 315
BaeGI GKGCMC 2 cut(s) 996, 1141
BanI GGYRCC 1 cut(s) 993
BbsI GAAGAC 1 cut(s) 906
Bbv12I GWGCWC 1 cut(s) 1141
BbvI GCAGC 4 cut(s) 26, 59, 514, 876
BccI CCATC 3 cut(s) 339, 1078, 1093
BceAI ACGGC 2 cut(s) 271, 1119
BcgI CGANNNNNNTGC 2 cut(s) 220, 254
BciT130I CCWGG 2 cut(s) 326, 409
BclI TGATCA 1 cut(s) 477
BcoDI GTCTC 2 cut(s) 267, 299
BfaI CTAG 1 cut(s) 989
BisI GCNGC 5 cut(s) 40, 70, 73, 528, 865
BlpI GCTNAGC 1 cut(s) 117
BlsI GCNGC 5 cut(s) 41, 71, 74, 529, 866
Bme1390I CCNGG 2 cut(s) 326, 409
Bme18I GGWCC 1 cut(s) 315
BmeT110I CYCGRG 2 cut(s) 764, 1058
BmgT120I GGNCC 2 cut(s) 315, 328
BmiI GGNNCC 2 cut(s) 406, 995
BmrFI CCNGG 2 cut(s) 326, 409
BmsI GCATC 1 cut(s) 1108
BoxI GACNNNNGTC 1 cut(s) 1040
BpiI GAAGAC 1 cut(s) 906
Bpu1102I GCTNAGC 1 cut(s) 117
BpuEI CTTGAG 2 cut(s) 662, 872
BsaBI GATNNNNATC 1 cut(s) 504
BsaJI CCNNGG 6 cut(s) 287, 325, 888, 912, 1031, 1122
BsaWI WCCGGW 2 cut(s) 965, 1048
Bsc4I CCNNNNNNNGG 1 cut(s) 1091
Bse1I ACTGG 2 cut(s) 313, 848
Bse8I GATNNNNATC 1 cut(s) 504
BseAI TCCGGA 2 cut(s) 965, 1048
BseBI CCWGG 2 cut(s) 326, 409
BseDI CCNNGG 6 cut(s) 287, 325, 888, 912, 1031, 1122
BseGI GGATG 7 cut(s) 47, 307, 841, 922, 1023, 1085, 1101
BseJI GATNNNNATC 1 cut(s) 504
BseLI CCNNNNNNNGG 1 cut(s) 1091
BseMII CTCAG 3 cut(s) 131, 639, 726
BseNI ACTGG 2 cut(s) 313, 848
BseRI GAGGAG 3 cut(s) 395, 869, 959
BseSI GKGCMC 2 cut(s) 996, 1141
BseXI GCAGC 4 cut(s) 26, 59, 514, 876
BshFI GGCC 1 cut(s) 330
BshNI GGYRCC 1 cut(s) 993
BsiHKAI GWGCWC 1 cut(s) 1141
BsiHKCI CYCGRG 2 cut(s) 764, 1058
BsiSI CCGG 2 cut(s) 966, 1049
BslFI GGGAC 1 cut(s) 1075
BslI CCNNNNNNNGG 1 cut(s) 1091
BsmAI GTCTC 2 cut(s) 267, 299
BsmFI GGGAC 1 cut(s) 1075
BsnI GGCC 1 cut(s) 330
BsoBI CYCGRG 2 cut(s) 764, 1058
Bsp1286I GDGCHC 2 cut(s) 996, 1141
Bsp13I TCCGGA 2 cut(s) 965, 1048
Bsp143I GATC 3 cut(s) 107, 477, 1051
Bsp1720I GCTNAGC 1 cut(s) 117
BspACI CCGC 4 cut(s) 42, 69, 160, 399
BspANI GGCC 1 cut(s) 330
BspCNI CTCAG 3 cut(s) 130, 638, 725
BspEI TCCGGA 2 cut(s) 965, 1048
BspLI GGNNCC 2 cut(s) 406, 995
BspPI GGATC 1 cut(s) 1059
BspT107I GGYRCC 1 cut(s) 993
BsrI ACTGG 2 cut(s) 313, 848
BssECI CCNNGG 6 cut(s) 287, 325, 888, 912, 1031, 1122
BssMI GATC 3 cut(s) 107, 477, 1051
BssT1I CCWWGG 2 cut(s) 888, 1122
Bst2UI CCWGG 2 cut(s) 326, 409
Bst4CI ACNGT 4 cut(s) 143, 315, 435, 1042
Bst6I CTCTTC 2 cut(s) 679, 936
BstC8I GCNNGC 2 cut(s) 77, 189
BstDEI CTNAG 3 cut(s) 117, 625, 712
BstDSI CCRYGG 1 cut(s) 287
BstF5I GGATG 7 cut(s) 47, 307, 841, 922, 1023, 1085, 1101
BstKTI GATC 3 cut(s) 110, 480, 1054
BstMAI GTCTC 2 cut(s) 267, 299
BstMBI GATC 3 cut(s) 107, 477, 1051
BstMWI GCNNNNNNNGC 3 cut(s) 398, 582, 991
BstNI CCWGG 2 cut(s) 326, 409
BstPAI GACNNNNGTC 1 cut(s) 1040
BstSCI CCNGG 2 cut(s) 324, 407
BstSLI GKGCMC 2 cut(s) 996, 1141
BstV1I GCAGC 4 cut(s) 26, 59, 514, 876
BstV2I GAAGAC 1 cut(s) 906
BsuRI GGCC 1 cut(s) 330
BtgI CCRYGG 1 cut(s) 287
BtgZI GCGATG 2 cut(s) 795, 882
BtsCI GGATG 7 cut(s) 47, 307, 841, 922, 1023, 1085, 1101
BtsIMutI CAGTG 1 cut(s) 139
Cac8I GCNNGC 2 cut(s) 77, 189
Cfr13I GGNCC 2 cut(s) 315, 328
CpoI CGGWCCG 1 cut(s) 315
CseI GACGC 1 cut(s) 502
Csp6I GTAC 2 cut(s) 322, 792
CspCI CAANNNNNGTGG 2 cut(s) 553, 588
CspI CGGWCCG 1 cut(s) 315
CviAII CATG 3 cut(s) 30, 99, 176
CviQI GTAC 2 cut(s) 322, 792
DdeI CTNAG 3 cut(s) 117, 625, 712
DpnI GATC 3 cut(s) 109, 479, 1053
DpnII GATC 3 cut(s) 107, 477, 1051
DrdI GACNNNNNNGTC 1 cut(s) 313
DseDI GACNNNNNNGTC 1 cut(s) 313
Eam1104I CTCTTC 2 cut(s) 679, 936
EarI CTCTTC 2 cut(s) 679, 936
Eco130I CCWWGG 2 cut(s) 888, 1122
Eco47I GGWCC 1 cut(s) 315
Eco57I CTGAAG 1 cut(s) 41
Eco88I CYCGRG 2 cut(s) 764, 1058
EcoRII CCWGG 2 cut(s) 324, 407
EcoT14I CCWWGG 2 cut(s) 888, 1122
ErhI CCWWGG 2 cut(s) 888, 1122
FaeI CATG 3 cut(s) 33, 102, 179
FaiI YATR 7 cut(s) 31, 100, 177, 438, 505, 521, 1110
FalI AAGNNNNNCTT 2 cut(s) 197, 229
FaqI GGGAC 1 cut(s) 1075
FatI CATG 3 cut(s) 29, 98, 175
FauI CCCGC 2 cut(s) 167, 406
FbaI TGATCA 1 cut(s) 477
Fnu4HI GCNGC 5 cut(s) 40, 70, 73, 528, 865
FokI GGATG 7 cut(s) 34, 314, 848, 929, 1030, 1072, 1108
Fsp4HI GCNGC 5 cut(s) 40, 70, 73, 528, 865
FspBI CTAG 1 cut(s) 989
GluI GCNGC 5 cut(s) 40, 70, 73, 528, 865
HaeIII GGCC 1 cut(s) 330
HapII CCGG 2 cut(s) 966, 1049
HgaI GACGC 1 cut(s) 502
Hin1II CATG 3 cut(s) 33, 102, 179
HindIII AAGCTT 2 cut(s) 23, 848
HinfI GANTC 7 cut(s) 85, 166, 225, 675, 954, 962, 1004
HpaII CCGG 2 cut(s) 966, 1049
HphI GGTGA 4 cut(s) 148, 704, 971, 991
Hpy166II GTNNAC 3 cut(s) 562, 953, 1139
Hpy188I TCNGA 4 cut(s) 55, 319, 628, 715
Hpy188III TCNNGA 8 cut(s) 170, 229, 338, 679, 766, 966, 1049, 1060
Hpy8I GTNNAC 3 cut(s) 562, 953, 1139
Hpy99I CGWCG 1 cut(s) 1027
HpyAV CCTTC 6 cut(s) 368, 507, 608, 695, 782, 826
HpyCH4III ACNGT 4 cut(s) 143, 315, 435, 1042
HpyF10VI GCNNNNNNNGC 3 cut(s) 398, 582, 991
HpyF3I CTNAG 3 cut(s) 117, 625, 712
Hsp92II CATG 3 cut(s) 33, 102, 179
Kpn2I TCCGGA 2 cut(s) 965, 1048
Ksp22I TGATCA 1 cut(s) 477
Kzo9I GATC 3 cut(s) 107, 477, 1051
LmnI GCTCC 1 cut(s) 539
Lsp1109I GCAGC 4 cut(s) 26, 59, 514, 876
LweI GCATC 1 cut(s) 1108
MaeI CTAG 1 cut(s) 989
MalI GATC 3 cut(s) 109, 479, 1053
MboI GATC 3 cut(s) 107, 477, 1051
MboII GAAGA 8 cut(s) 326, 696, 743, 746, 911, 938, 953, 991
MhlI GDGCHC 2 cut(s) 996, 1141
MluCI AATT 3 cut(s) 341, 566, 974
MlyI GAGTC 4 cut(s) 79, 669, 948, 1013
MmeI TCCRAC 1 cut(s) 78
MroI TCCGGA 2 cut(s) 965, 1048
MroXI GAANNNNTTC 1 cut(s) 212
MslI CAYNNNNRTG 1 cut(s) 144
MspA1I CMGCKG 1 cut(s) 401
MspI CCGG 2 cut(s) 966, 1049
MspR9I CCNGG 2 cut(s) 326, 409
MvaI CCWGG 2 cut(s) 326, 409
MwoI GCNNNNNNNGC 3 cut(s) 398, 582, 991
NdeII GATC 3 cut(s) 107, 477, 1051
NlaIII CATG 3 cut(s) 33, 102, 179
NlaIV GGNNCC 2 cut(s) 406, 995
OliI CACNNNNGTG 1 cut(s) 144
PaeR7I CTCGAG 1 cut(s) 764
PcsI WCGNNNNNNNCGW 1 cut(s) 1028
PdmI GAANNNNTTC 1 cut(s) 212
PfeI GAWTC 3 cut(s) 166, 225, 962
PkrI GCNGC 5 cut(s) 41, 71, 74, 529, 866
PleI GAGTC 4 cut(s) 79, 669, 948, 1012
PpsI GAGTC 4 cut(s) 79, 669, 948, 1012
PshAI GACNNNNGTC 1 cut(s) 1040
Psp6I CCWGG 2 cut(s) 324, 407
PspGI CCWGG 2 cut(s) 324, 407
PspN4I GGNNCC 2 cut(s) 406, 995
PspPI GGNCC 2 cut(s) 315, 328
RsaI GTAC 2 cut(s) 323, 793
RsaNI GTAC 2 cut(s) 322, 792
RseI CAYNNNNRTG 1 cut(s) 144
Rsr2I CGGWCCG 1 cut(s) 315
RsrII CGGWCCG 1 cut(s) 315
SatI GCNGC 5 cut(s) 40, 70, 73, 528, 865
Sau3AI GATC 3 cut(s) 107, 477, 1051
Sau96I GGNCC 2 cut(s) 315, 328
SchI GAGTC 4 cut(s) 79, 669, 948, 1013
ScrFI CCNGG 2 cut(s) 326, 409
SduI GDGCHC 2 cut(s) 996, 1141
SfaNI GCATC 1 cut(s) 1108
Sfr274I CTCGAG 1 cut(s) 764
SinI GGWCC 1 cut(s) 315
SlaI CTCGAG 1 cut(s) 764
SmiMI CAYNNNNRTG 1 cut(s) 144
SmlI CTYRAG 3 cut(s) 677, 764, 851
SmoI CTYRAG 3 cut(s) 677, 764, 851
Sse9I AATT 3 cut(s) 341, 566, 974
SsiI CCGC 4 cut(s) 42, 69, 160, 399
SspMI CTAG 1 cut(s) 989
StyD4I CCNGG 2 cut(s) 324, 407
StyI CCWWGG 2 cut(s) 888, 1122
TaaI ACNGT 4 cut(s) 143, 315, 435, 1042
TaqI TCGA 4 cut(s) 169, 230, 765, 1007
TasI AATT 3 cut(s) 341, 566, 974
TauI GCSGC 1 cut(s) 72
TfiI GAWTC 3 cut(s) 166, 225, 962
TscAI CASTG 1 cut(s) 146
TseI GCWGC 4 cut(s) 39, 72, 527, 864
TspDTI ATGAA 9 cut(s) 18, 36, 205, 536, 627, 714, 801, 891, 954
TspGWI ACGGA 2 cut(s) 23, 78
TspRI CASTG 1 cut(s) 146
VneI GTGCAC 1 cut(s) 1137
VpaK11BI GGWCC 1 cut(s) 315
XapI RAATTY 1 cut(s) 566
XhoI CTCGAG 1 cut(s) 764
XmnI GAANNNNTTC 1 cut(s) 212
XspI CTAG 1 cut(s) 989
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.