RLG00000012342

Transcription initiation factor IIF subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr3
OG0001724
Physical Location & Seq
Reverse (-)
17645814 .. 17650263
4450 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000012342

Sequence Viewer

Length: 1272 bp
ATGGAGAAAAAGGAGAACTGGGCCGGGTCAGTTATAGGCCTTTCGGATTCATTCGCAGATCCGGTGCCCCAAGAACCATTCAGAGGGAAGAGGATGTCTATGGATTTACTGCTCAGGCCATTGTCTAGTGGCTGTGGTTCGTCGTCGGAATTAGGCAGAAGCAACTGCAAACTCACTACCCTGTGCATTTCATGTGGCAAATGCATGGCTGAGAAGAAGGCCAATTGCTCTGACTGTGGAGCCACTCTCACTCGCTTAATTCGAAGAAGTTGTAAAAATAAATGGTCTCTATGTAAAACGAAAAGTAAAGATGGATTACAAGGGCGCCAAGATAACTTTCAGGATAAGTTGCTCAGAAATAAAACATGGGTATTGATGAAAATAGGCAGTCTGTACCAAGGGAATCTAGAAGAACTGTCTGCAGCTTACTACCTACTAATACCGGAAGGATCAAGGAGATTTCTGCTATTCCTGCTGATAAAGGGGACGACAATGAGGAAGAAGAAGGAGGAAGAAAAAAATAGACGTAGAGTCAAGAAAAGAGGTGATGATGATGTTGAAAGTGCAAGTGGAGATGATGACTTTGATGATGATGATGATGATGATGATAGTGAGAAGGGTGGTGGAGCATATGAGCATGTTGTTGTATCTTTTATGCTGGATGATGACGAAGATTATAACAATAATGATGAAGATATATATATATATATATATATATATATATATATATATATATATATATGGCAGACTGAGCAAATCCGGAAAAGAAAGAAGCTACTTGGGCGCCTGAATGAGTCAGATACAGAGGATGACGATGACGATGACAATCACGATGCCAATGGGGATGAGAATGTAGGTTGTTTATTTTGGGGGTGTCTAATTTTAGCCTATTGCTGCCTTATGGATGATGTTATTGACAAAGGTCCCCTAAAACCAGTGCCTTCTGGAACTTTTCAAACAACCCCATCTACCTCCAAGGGAAAGATAAAAAGTAATGATGATGAAGCCAAGGCATCTAATAGTGCACCTCACAAGAAGGCGAAGACTGAAAATGGTCAAAAACCTTCCTTCAAAGAAGAGCCTGCATTTGCTAGTCCTGTCACTGAAGAAGAAATCAGGGCTATTTTGATGCAACGTACAGAGAAGGAGGCTTTTACAGCAATCCTGAAGAGAATGCATTCTCAGAAAACAATTTCCAGGAAACCAAAATACAATGGAACCGGTTATTTTGTTGTACTGAGAGAAAGTGAATTGAATATGGCCTCCCCATAG
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

424

Amino Acids

47.92

Weight (kDa)

5.6

Isoelectric Point (pI)

49.38

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TFIIF_alpha PF05793 251 - 397 7.2e-12 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)
AanI TTATAA 1 cut(s) 678
AccB1I GGYRCC 3 cut(s) 64, 324, 783
AccIII TCCGGA 1 cut(s) 759
AclWI GGATC 2 cut(s) 53, 457
AcuI CTGAAG 2 cut(s) 1125, 1187
AcyI GRCGYC 2 cut(s) 325, 784
AfaI GTAC 3 cut(s) 395, 1138, 1236
AfiI CCNNNNNNNGG 1 cut(s) 83
AgeI ACCGGT 1 cut(s) 1220
AgsI TTSAA 4 cut(s) 560, 956, 1072, 1255
AhdI GACNNNNNGTC 1 cut(s) 530
AjnI CCWGG 1 cut(s) 1196
AjuI GAANNNNNNNTTGG 2 cut(s) 321, 353
AluBI AGCT 2 cut(s) 425, 775
AluI AGCT 2 cut(s) 425, 775
Alw21I GWGCWC 1 cut(s) 1027
Alw26I GTCTC 1 cut(s) 291
Alw44I GTGCAC 1 cut(s) 1023
AlwI GGATC 2 cut(s) 53, 457
Aor13HI TCCGGA 1 cut(s) 759
AoxI GGCC 5 cut(s) 21, 37, 116, 219, 1260
ApaLI GTGCAC 1 cut(s) 1023
ApeKI GCWGC 2 cut(s) 422, 894
AsiGI ACCGGT 1 cut(s) 1220
Asp700I GAANNNNTTC 1 cut(s) 1177
AspLEI GCGC 2 cut(s) 327, 786
AspS9I GGNCC 2 cut(s) 21, 923
AsuC2I CCSGG 1 cut(s) 25
AsuHPI GGTGA 1 cut(s) 557
AsuII TTCGAA 1 cut(s) 262
AvaII GGWCC 1 cut(s) 923
BaeGI GKGCMC 2 cut(s) 69, 1027
BanI GGYRCC 3 cut(s) 64, 324, 783
BbsI GAAGAC 1 cut(s) 1049
Bbv12I GWGCWC 1 cut(s) 1027
BbvI GCAGC 2 cut(s) 434, 881
BccI CCATC 2 cut(s) 305, 973
BciT130I CCWGG 1 cut(s) 1198
BcnI CCSGG 1 cut(s) 25
BcoDI GTCTC 1 cut(s) 291
BfaI CTAG 3 cut(s) 126, 407, 1092
BfmI CTRYAG 1 cut(s) 420
BfoI RGCGCY 2 cut(s) 328, 787
BisI GCNGC 2 cut(s) 423, 895
BlsI GCNGC 2 cut(s) 424, 896
Bme1390I CCNGG 2 cut(s) 25, 1198
Bme18I GGWCC 1 cut(s) 923
BmeRI GACNNNNNGTC 1 cut(s) 530
BmgT120I GGNCC 2 cut(s) 21, 923
BmiI GGNNCC 6 cut(s) 66, 241, 326, 785, 925, 1219
BmrFI CCNGG 2 cut(s) 25, 1198
BmrI ACTGGG 1 cut(s) 28
BmsI GCATC 3 cut(s) 823, 1022, 1119
BmuI ACTGGG 1 cut(s) 28
BoxI GACNNNNGTC 1 cut(s) 921
BpiI GAAGAC 1 cut(s) 1049
BplI GAGNNNNNCTC 2 cut(s) 231, 263
Bpu10I CCTNAGC 1 cut(s) 113
Bpu14I TTCGAA 1 cut(s) 262
BpuMI CCSGG 1 cut(s) 25
BsaBI GATNNNNATC 1 cut(s) 825
BsaHI GRCGYC 2 cut(s) 325, 784
BsaI GGTCTC 1 cut(s) 291
BsaJI CCNNGG 3 cut(s) 397, 975, 1008
BsaWI WCCGGW 4 cut(s) 61, 442, 759, 1220
Bsc4I CCNNNNNNNGG 1 cut(s) 83
Bse118I RCCGGY 1 cut(s) 1220
Bse1I ACTGG 2 cut(s) 23, 935
Bse8I GATNNNNATC 1 cut(s) 825
BseAI TCCGGA 1 cut(s) 759
BseBI CCWGG 1 cut(s) 1198
BseDI CCNNGG 3 cut(s) 397, 975, 1008
BseGI GGATG 5 cut(s) 99, 667, 814, 850, 910
BseJI GATNNNNATC 1 cut(s) 825
BseLI CCNNNNNNNGG 1 cut(s) 83
BseMII CTCAG 6 cut(s) 127, 201, 367, 741, 1196, 1229
BseNI ACTGG 2 cut(s) 23, 935
BseSI GKGCMC 2 cut(s) 69, 1027
BseXI GCAGC 2 cut(s) 434, 881
BshFI GGCC 5 cut(s) 23, 39, 118, 221, 1262
BshNI GGYRCC 3 cut(s) 64, 324, 783
BshTI ACCGGT 1 cut(s) 1220
BsiHKAI GWGCWC 1 cut(s) 1027
BsiSI CCGG 5 cut(s) 24, 62, 443, 760, 1221
BslFI GGGAC 2 cut(s) 499, 909
BslI CCNNNNNNNGG 1 cut(s) 83
BsmAI GTCTC 1 cut(s) 291
BsmFI GGGAC 2 cut(s) 499, 909
BsmI GAATGC 2 cut(s) 1177, 1179
BsnI GGCC 5 cut(s) 23, 39, 118, 221, 1262
Bso31I GGTCTC 1 cut(s) 291
Bsp119I TTCGAA 1 cut(s) 262
Bsp1286I GDGCHC 2 cut(s) 69, 1027
Bsp13I TCCGGA 1 cut(s) 759
Bsp143I GATC 2 cut(s) 58, 449
BspANI GGCC 5 cut(s) 23, 39, 118, 221, 1262
BspCNI CTCAG 6 cut(s) 126, 202, 366, 742, 1195, 1230
BspEI TCCGGA 1 cut(s) 759
BspLI GGNNCC 6 cut(s) 66, 241, 326, 785, 925, 1219
BspMAI CTGCAG 1 cut(s) 424
BspPI GGATC 2 cut(s) 53, 457
BspQI GCTCTTC 1 cut(s) 1071
BspT104I TTCGAA 1 cut(s) 262
BspT107I GGYRCC 3 cut(s) 64, 324, 783
BspTNI GGTCTC 1 cut(s) 291
BsrFI RCCGGY 1 cut(s) 1220
BsrI ACTGG 2 cut(s) 23, 935
BssAI RCCGGY 1 cut(s) 1220
BssECI CCNNGG 3 cut(s) 397, 975, 1008
BssMI GATC 2 cut(s) 58, 449
BssNI GRCGYC 2 cut(s) 325, 784
BssT1I CCWWGG 3 cut(s) 397, 975, 1008
Bst2UI CCWGG 1 cut(s) 1198
Bst4CI ACNGT 2 cut(s) 236, 417
Bst6I CTCTTC 3 cut(s) 83, 1071, 1163
BstACI GRCGYC 2 cut(s) 325, 784
BstBI TTCGAA 1 cut(s) 262
BstC8I GCNNGC 1 cut(s) 1083
BstDEI CTNAG 6 cut(s) 113, 210, 353, 750, 1182, 1238
BstF5I GGATG 5 cut(s) 99, 667, 814, 850, 910
BstH2I RGCGCY 2 cut(s) 328, 787
BstHHI GCGC 2 cut(s) 327, 786
BstKTI GATC 2 cut(s) 61, 452
BstMAI GTCTC 1 cut(s) 291
BstMBI GATC 2 cut(s) 58, 449
BstMWI GCNNNNNNNGC 4 cut(s) 472, 751, 781, 1157
BstNI CCWGG 1 cut(s) 1198
BstNSI RCATGY 1 cut(s) 641
BstPAI GACNNNNGTC 1 cut(s) 921
BstSCI CCNGG 2 cut(s) 23, 1196
BstSFI CTRYAG 1 cut(s) 420
BstSLI GKGCMC 2 cut(s) 69, 1027
BstV1I GCAGC 2 cut(s) 434, 881
BstV2I GAAGAC 1 cut(s) 1049
BstX2I RGATCY 1 cut(s) 58
BstYI RGATCY 1 cut(s) 58
BsuRI GGCC 5 cut(s) 23, 39, 118, 221, 1262
BtsCI GGATG 5 cut(s) 99, 667, 814, 850, 910
BtsIMutI CAGTG 2 cut(s) 942, 1101
Cac8I GCNNGC 1 cut(s) 1083
CfoI GCGC 2 cut(s) 327, 786
Cfr10I RCCGGY 1 cut(s) 1220
Cfr13I GGNCC 2 cut(s) 21, 923
Csp6I GTAC 3 cut(s) 394, 1137, 1235
CspAI ACCGGT 1 cut(s) 1220
CviAII CATG 4 cut(s) 192, 205, 366, 638
CviQI GTAC 3 cut(s) 394, 1137, 1235
DdeI CTNAG 6 cut(s) 113, 210, 353, 750, 1182, 1238
DinI GGCGCC 2 cut(s) 326, 785
DpnI GATC 2 cut(s) 60, 451
DpnII GATC 2 cut(s) 58, 449
DriI GACNNNNNGTC 1 cut(s) 530
Eam1104I CTCTTC 3 cut(s) 83, 1071, 1163
Eam1105I GACNNNNNGTC 1 cut(s) 530
EarI CTCTTC 3 cut(s) 83, 1071, 1163
Eco130I CCWWGG 3 cut(s) 397, 975, 1008
Eco147I AGGCCT 1 cut(s) 39
Eco31I GGTCTC 1 cut(s) 291
Eco47I GGWCC 1 cut(s) 923
Eco57I CTGAAG 2 cut(s) 1125, 1187
EcoO109I RGGNCCY 1 cut(s) 923
EcoRII CCWGG 1 cut(s) 1196
EcoT14I CCWWGG 3 cut(s) 397, 975, 1008
EcoT22I ATGCAT 2 cut(s) 206, 1179
EgeI GGCGCC 2 cut(s) 326, 785
EheI GGCGCC 2 cut(s) 326, 785
ErhI CCWWGG 3 cut(s) 397, 975, 1008
FaeI CATG 4 cut(s) 195, 208, 369, 641
FaqI GGGAC 2 cut(s) 499, 909
FatI CATG 4 cut(s) 191, 204, 365, 637
FauNDI CATATG 1 cut(s) 631
Fnu4HI GCNGC 2 cut(s) 423, 895
FokI GGATG 5 cut(s) 106, 674, 821, 857, 917
Fsp4HI GCNGC 2 cut(s) 423, 895
FspBI CTAG 3 cut(s) 126, 407, 1092
GlaI GCGC 2 cut(s) 326, 785
GluI GCNGC 2 cut(s) 423, 895
HaeII RGCGCY 2 cut(s) 328, 787
HaeIII GGCC 5 cut(s) 23, 39, 118, 221, 1262
HapII CCGG 5 cut(s) 24, 62, 443, 760, 1221
HhaI GCGC 2 cut(s) 327, 786
Hin1I GRCGYC 2 cut(s) 325, 784
Hin1II CATG 4 cut(s) 195, 208, 369, 641
Hin6I GCGC 2 cut(s) 325, 784
HinP1I GCGC 2 cut(s) 325, 784
HinfI GANTC 4 cut(s) 47, 403, 531, 794
HpaII CCGG 5 cut(s) 24, 62, 443, 760, 1221
HphI GGTGA 1 cut(s) 557
Hpy166II GTNNAC 1 cut(s) 1025
Hpy188I TCNGA 7 cut(s) 46, 83, 148, 232, 356, 799, 1185
Hpy188III TCNNGA 7 cut(s) 341, 407, 535, 760, 830, 945, 1165
Hpy8I GTNNAC 1 cut(s) 1025
Hpy99I CGWCG 2 cut(s) 145, 148
HpyAV CCTTC 9 cut(s) 211, 440, 499, 610, 951, 1030, 1074, 1078, 1138
HpyCH4III ACNGT 2 cut(s) 236, 417
HpyCH4IV ACGT 2 cut(s) 526, 1135
HpyCH4V TGCA 9 cut(s) 168, 186, 204, 422, 566, 1025, 1085, 1132, 1177
HpyF10VI GCNNNNNNNGC 4 cut(s) 472, 751, 781, 1157
HpyF3I CTNAG 6 cut(s) 113, 210, 353, 750, 1182, 1238
HpySE526I ACGT 2 cut(s) 526, 1135
Hsp92I GRCGYC 2 cut(s) 325, 784
Hsp92II CATG 4 cut(s) 195, 208, 369, 641
HspAI GCGC 2 cut(s) 325, 784
KasI GGCGCC 2 cut(s) 324, 783
Kpn2I TCCGGA 1 cut(s) 759
Kzo9I GATC 2 cut(s) 58, 449
LguI GCTCTTC 1 cut(s) 1071
LmnI GCTCC 2 cut(s) 239, 626
Lsp1109I GCAGC 2 cut(s) 434, 881
LweI GCATC 3 cut(s) 823, 1022, 1119
MaeI CTAG 3 cut(s) 126, 407, 1092
MaeII ACGT 2 cut(s) 526, 1135
MaeIII GTNAC 1 cut(s) 1099
MalI GATC 2 cut(s) 60, 451
MboI GATC 2 cut(s) 58, 449
MfeI CAATTG 1 cut(s) 223
MflI RGATCY 1 cut(s) 58
MhlI GDGCHC 2 cut(s) 69, 1027
MluCI AATT 6 cut(s) 149, 223, 258, 879, 1191, 1250
Mly113I GGCGCC 2 cut(s) 325, 784
MlyI GAGTC 2 cut(s) 540, 803
MmeI TCCRAC 1 cut(s) 126
MnlI CCTC 9 cut(s) 77, 84, 489, 502, 536, 799, 982, 1038, 1141
Mph1103I ATGCAT 2 cut(s) 206, 1179
MroI TCCGGA 1 cut(s) 759
MroXI GAANNNNTTC 1 cut(s) 1177
MseI TTAA 1 cut(s) 257
MspI CCGG 5 cut(s) 24, 62, 443, 760, 1221
MspR9I CCNGG 2 cut(s) 25, 1198
MunI CAATTG 1 cut(s) 223
Mva1269I GAATGC 2 cut(s) 1177, 1179
MvaI CCWGG 1 cut(s) 1198
MwoI GCNNNNNNNGC 4 cut(s) 472, 751, 781, 1157
NarI GGCGCC 2 cut(s) 325, 784
NciI CCSGG 1 cut(s) 25
NdeI CATATG 1 cut(s) 631
NdeII GATC 2 cut(s) 58, 449
NlaIII CATG 4 cut(s) 195, 208, 369, 641
NlaIV GGNNCC 6 cut(s) 66, 241, 326, 785, 925, 1219
NmuCI GTSAC 1 cut(s) 1099
NsiI ATGCAT 2 cut(s) 206, 1179
NspI RCATGY 1 cut(s) 641
NspV TTCGAA 1 cut(s) 262
PceI AGGCCT 1 cut(s) 39
PciSI GCTCTTC 1 cut(s) 1071
PcsI WCGNNNNNNNCGW 1 cut(s) 259
PctI GAATGC 2 cut(s) 1177, 1179
PdmI GAANNNNTTC 1 cut(s) 1177
PfeI GAWTC 2 cut(s) 47, 403
PfoI TCCNGGA 1 cut(s) 1196
PinAI ACCGGT 1 cut(s) 1220
PkrI GCNGC 2 cut(s) 424, 896
PleI GAGTC 2 cut(s) 539, 802
PluTI GGCGCC 2 cut(s) 328, 787
PpsI GAGTC 2 cut(s) 539, 802
PpuMI RGGWCCY 1 cut(s) 923
PshAI GACNNNNGTC 1 cut(s) 921
PsiI TTATAA 1 cut(s) 678
Psp5II RGGWCCY 1 cut(s) 923
Psp6I CCWGG 1 cut(s) 1196
PspGI CCWGG 1 cut(s) 1196
PspN4I GGNNCC 6 cut(s) 66, 241, 326, 785, 925, 1219
PspPI GGNCC 2 cut(s) 21, 923
PspPPI RGGWCCY 1 cut(s) 923
PstI CTGCAG 1 cut(s) 424
PsuI RGATCY 1 cut(s) 58
RsaI GTAC 3 cut(s) 395, 1138, 1236
RsaNI GTAC 3 cut(s) 394, 1137, 1235
SapI GCTCTTC 1 cut(s) 1071
SaqAI TTAA 1 cut(s) 257
SatI GCNGC 2 cut(s) 423, 895
Sau3AI GATC 2 cut(s) 58, 449
Sau96I GGNCC 2 cut(s) 21, 923
SchI GAGTC 2 cut(s) 540, 803
ScrFI CCNGG 2 cut(s) 25, 1198
SduI GDGCHC 2 cut(s) 69, 1027
SfaNI GCATC 3 cut(s) 823, 1022, 1119
SfcI CTRYAG 1 cut(s) 420
SfoI GGCGCC 2 cut(s) 326, 785
SfuI TTCGAA 1 cut(s) 262
SinI GGWCC 1 cut(s) 923
Sse9I AATT 6 cut(s) 149, 223, 258, 879, 1191, 1250
SseBI AGGCCT 1 cut(s) 39
SspDI GGCGCC 2 cut(s) 324, 783
SspMI CTAG 3 cut(s) 126, 407, 1092
StuI AGGCCT 1 cut(s) 39
StyD4I CCNGG 2 cut(s) 23, 1196
StyI CCWWGG 3 cut(s) 397, 975, 1008
TaaI ACNGT 2 cut(s) 236, 417
TaiI ACGT 2 cut(s) 529, 1138
TaqI TCGA 1 cut(s) 262
TasI AATT 6 cut(s) 149, 223, 258, 879, 1191, 1250
TatI WGTACW 1 cut(s) 1234
TfiI GAWTC 2 cut(s) 47, 403
Tru1I TTAA 1 cut(s) 257
Tru9I TTAA 1 cut(s) 257
TscAI CASTG 2 cut(s) 942, 1108
TseFI GTSAC 1 cut(s) 1099
TseI GCWGC 2 cut(s) 422, 894
Tsp45I GTSAC 1 cut(s) 1099
TspDTI ATGAA 5 cut(s) 39, 180, 392, 705, 1017
TspRI CASTG 2 cut(s) 942, 1108
VneI GTGCAC 1 cut(s) 1023
VpaK11BI GGWCC 1 cut(s) 923
XbaI TCTAGA 1 cut(s) 406
XceI RCATGY 1 cut(s) 641
XmnI GAANNNNTTC 1 cut(s) 1177
XspI CTAG 3 cut(s) 126, 407, 1092
Zsp2I ATGCAT 2 cut(s) 206, 1179
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.