RchiOBHm_Chr6g0288941

Transcription initiation factor IIF subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
6
OG0001724
Physical Location & Seq
Forward (+)
52058466 .. 52061056
2591 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ25922

Sequence Viewer

Length: 1020 bp
ATGGTGTTTGGGCCAATACTGTTGATGACAAGAAGTACTTCATTGGTACATTCTCGACGGGGCTGCCAAAATTTTGGAAGAAAAGTTGTGAAAATATATGGTCTCAATGTAAAAAGAAGTAAAGATGGATTACAAGGGCGCCAAGATAACTTTCAGGATAAGTTGCTCAGAAATAAATTATCTTGGAGGATGAAAATAGGCAGTCTGTACCAAGGGGATCCTGAAGAGCTGTCTGCAGCTTACTACCTACTAATGCTGGAAGGAAAGGAGATTTCTGCTATTCCTGCTGGTTCTTGGTATGTAGTGTACAGTGTAGCACAGTATAAGCAATTTACTTTGGAGGAAGCCGAAGATAAGATGAACAGTAGGAAAAAGAAGCAATATGAACATGAAAGATGGATAATGAAAGCTGCAACTAATGGAGCTGTTGCATATGGTAATGTGGAGAAGTTTGGTGACAGTGATAGCAAACACGAAACTGGTGATGATGATGATGATGAACGAAATTTCTCAGATAAAGGGGACGGAGATGAGAAAGGAGGAAGAAAAAATAGATGTAGACGGAATGATGAAAATAGTCCTGAGGAAATAGAAGACTTTGCAACCGAGGTTCCAGCTCCACCAAAACTTAAGCAGATTATTGATCATATTTCCTATGATGACGAAGATTATAGCGATGATGAAGATGGCAGACTGAGCAAATCCGGAAACGAGTTAAAGAAGGTACTTGGGCGCCTGAATAAGTCAGATACAGAGGATGACAATGACGATGACAATGACAATGCCGATGGGGATGATAATTTAAGTTATTTACTTTGGGGGTGTCTAATTTTAGCCTATTGCTGTCTTGTTAGAACTGCGCTGCACAAATGGTATCAATATATTTTAGCGTCAAGTGCATTTAGAAAAGTGAGATGCATTTATGTTGATAAGCTACCAACTTGGTATATGTATCAACTAGTATTTCACTGTTTCGCACTGTATTGCATCACATCTCTCTACTCACTGCGCTTTTCTTAA
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

339

Amino Acids

39.11

Weight (kDa)

5.45

Isoelectric Point (pI)

42.05

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TFIIF_alpha PF05793 78 - 184 2.7e-16 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)
AccB1I GGYRCC 2 cut(s) 138, 732
AccI GTMKAC 1 cut(s) 559
AccIII TCCGGA 1 cut(s) 704
AclWI GGATC 2 cut(s) 212, 225
AcsI RAATTY 2 cut(s) 70, 505
AcuI CTGAAG 1 cut(s) 243
AcyI GRCGYC 2 cut(s) 139, 733
AfaI GTAC 5 cut(s) 37, 48, 209, 308, 726
AflII CTTAAG 1 cut(s) 629
AhlI ACTAGT 1 cut(s) 958
AjuI GAANNNNNNNTTGG 2 cut(s) 135, 167
AluBI AGCT 6 cut(s) 229, 239, 410, 425, 617, 934
AluI AGCT 6 cut(s) 229, 239, 410, 425, 617, 934
Alw26I GTCTC 1 cut(s) 107
AlwI GGATC 2 cut(s) 212, 225
Aor13HI TCCGGA 1 cut(s) 704
AoxI GGCC 1 cut(s) 11
ApeKI GCWGC 4 cut(s) 63, 236, 410, 862
ApoI RAATTY 2 cut(s) 70, 505
Asp700I GAANNNNTTC 1 cut(s) 37
AspLEI GCGC 4 cut(s) 141, 735, 862, 1011
AspS9I GGNCC 1 cut(s) 11
AsuHPI GGTGA 2 cut(s) 467, 494
AxyI CCTNAGG 1 cut(s) 582
BamHI GGATCC 1 cut(s) 217
BanI GGYRCC 2 cut(s) 138, 732
BbsI GAAGAC 1 cut(s) 600
BbvI GCAGC 4 cut(s) 50, 248, 397, 849
BccI CCATC 4 cut(s) 119, 390, 680, 782
BcgI CGANNNNNNTGC 2 cut(s) 45, 79
BclI TGATCA 1 cut(s) 643
BcoDI GTCTC 1 cut(s) 107
BcuI ACTAGT 1 cut(s) 958
BfaI CTAG 1 cut(s) 959
BfmI CTRYAG 1 cut(s) 234
BfoI RGCGCY 2 cut(s) 142, 736
BfrI CTTAAG 1 cut(s) 629
BisI GCNGC 4 cut(s) 64, 237, 411, 863
BlsI GCNGC 4 cut(s) 65, 238, 412, 864
BmcAI AGTACT 1 cut(s) 37
BmgT120I GGNCC 1 cut(s) 11
BmiI GGNNCC 4 cut(s) 140, 219, 612, 734
BmsI GCATC 2 cut(s) 905, 996
BpiI GAAGAC 1 cut(s) 600
BsaHI GRCGYC 2 cut(s) 139, 733
BsaI GGTCTC 1 cut(s) 107
BsaJI CCNNGG 2 cut(s) 211, 606
BsaWI WCCGGW 1 cut(s) 704
Bse1I ACTGG 1 cut(s) 484
Bse21I CCTNAGG 1 cut(s) 582
BseAI TCCGGA 1 cut(s) 704
BseDI CCNNGG 2 cut(s) 211, 606
BseGI GGATG 3 cut(s) 195, 763, 799
BseMII CTCAG 4 cut(s) 181, 525, 573, 686
BseNI ACTGG 1 cut(s) 484
BseXI GCAGC 4 cut(s) 50, 248, 397, 849
BsgI GTGCAG 1 cut(s) 848
BshFI GGCC 1 cut(s) 13
BshNI GGYRCC 2 cut(s) 138, 732
BsiSI CCGG 1 cut(s) 705
BslFI GGGAC 1 cut(s) 536
BsmAI GTCTC 1 cut(s) 107
BsmFI GGGAC 1 cut(s) 536
BsnI GGCC 1 cut(s) 13
Bso31I GGTCTC 1 cut(s) 107
Bsp13I TCCGGA 1 cut(s) 704
Bsp1407I TGTACA 1 cut(s) 306
Bsp143I GATC 2 cut(s) 217, 643
BspANI GGCC 1 cut(s) 13
BspCNI CTCAG 4 cut(s) 180, 524, 574, 687
BspEI TCCGGA 1 cut(s) 704
BspLI GGNNCC 4 cut(s) 140, 219, 612, 734
BspMAI CTGCAG 1 cut(s) 238
BspPI GGATC 2 cut(s) 212, 225
BspQI GCTCTTC 1 cut(s) 219
BspT107I GGYRCC 2 cut(s) 138, 732
BspTI CTTAAG 1 cut(s) 629
BspTNI GGTCTC 1 cut(s) 107
BsrGI TGTACA 1 cut(s) 306
BsrI ACTGG 1 cut(s) 484
BssECI CCNNGG 2 cut(s) 211, 606
BssMI GATC 2 cut(s) 217, 643
BssNI GRCGYC 2 cut(s) 139, 733
BssT1I CCWWGG 1 cut(s) 211
Bst4CI ACNGT 7 cut(s) 21, 311, 321, 365, 461, 971, 981
Bst6I CTCTTC 1 cut(s) 219
BstACI GRCGYC 2 cut(s) 139, 733
BstAFI CTTAAG 1 cut(s) 629
BstAUI TGTACA 1 cut(s) 306
BstDEI CTNAG 4 cut(s) 167, 511, 582, 695
BstF5I GGATG 3 cut(s) 195, 763, 799
BstH2I RGCGCY 2 cut(s) 142, 736
BstHHI GCGC 4 cut(s) 141, 735, 862, 1011
BstKTI GATC 2 cut(s) 220, 646
BstMAI GTCTC 1 cut(s) 107
BstMBI GATC 2 cut(s) 217, 643
BstMWI GCNNNNNNNGC 3 cut(s) 284, 696, 896
BstSFI CTRYAG 1 cut(s) 234
BstV1I GCAGC 4 cut(s) 50, 248, 397, 849
BstV2I GAAGAC 1 cut(s) 600
BstX2I RGATCY 1 cut(s) 217
BstXI CCANNNNNNTGG 1 cut(s) 74
BstYI RGATCY 1 cut(s) 217
Bsu36I CCTNAGG 1 cut(s) 582
BsuRI GGCC 1 cut(s) 13
BtgZI GCGATG 1 cut(s) 690
BtsCI GGATG 3 cut(s) 195, 763, 799
BtsI GCAGTG 1 cut(s) 1004
BtsIMutI CAGTG 5 cut(s) 316, 466, 967, 977, 1004
CfoI GCGC 4 cut(s) 141, 735, 862, 1011
Cfr13I GGNCC 1 cut(s) 11
CseI GACGC 1 cut(s) 879
Csp6I GTAC 5 cut(s) 36, 47, 208, 307, 725
CviAII CATG 1 cut(s) 389
CviQI GTAC 5 cut(s) 36, 47, 208, 307, 725
DdeI CTNAG 4 cut(s) 167, 511, 582, 695
DinI GGCGCC 2 cut(s) 140, 734
DpnI GATC 2 cut(s) 219, 645
DpnII GATC 2 cut(s) 217, 643
Eam1104I CTCTTC 1 cut(s) 219
EarI CTCTTC 1 cut(s) 219
Eco130I CCWWGG 1 cut(s) 211
Eco31I GGTCTC 1 cut(s) 107
Eco57I CTGAAG 1 cut(s) 243
Eco81I CCTNAGG 1 cut(s) 582
EcoT14I CCWWGG 1 cut(s) 211
EcoT22I ATGCAT 1 cut(s) 920
EgeI GGCGCC 2 cut(s) 140, 734
EheI GGCGCC 2 cut(s) 140, 734
ErhI CCWWGG 1 cut(s) 211
FaeI CATG 1 cut(s) 392
FalI AAGNNNNNCTT 2 cut(s) 22, 54
FaqI GGGAC 1 cut(s) 536
FatI CATG 1 cut(s) 388
FauNDI CATATG 1 cut(s) 433
FbaI TGATCA 1 cut(s) 643
FblI GTMKAC 1 cut(s) 559
Fnu4HI GCNGC 4 cut(s) 64, 237, 411, 863
FokI GGATG 3 cut(s) 202, 770, 806
Fsp4HI GCNGC 4 cut(s) 64, 237, 411, 863
FspBI CTAG 1 cut(s) 959
GlaI GCGC 4 cut(s) 140, 734, 861, 1010
GluI GCNGC 4 cut(s) 64, 237, 411, 863
HaeII RGCGCY 2 cut(s) 142, 736
HaeIII GGCC 1 cut(s) 13
HapII CCGG 1 cut(s) 705
HgaI GACGC 1 cut(s) 879
HhaI GCGC 4 cut(s) 141, 735, 862, 1011
Hin1I GRCGYC 2 cut(s) 139, 733
Hin1II CATG 1 cut(s) 392
Hin6I GCGC 4 cut(s) 139, 733, 860, 1009
HinP1I GCGC 4 cut(s) 139, 733, 860, 1009
HpaII CCGG 1 cut(s) 705
HphI GGTGA 2 cut(s) 467, 494
Hpy166II GTNNAC 2 cut(s) 307, 560
Hpy188I TCNGA 3 cut(s) 170, 514, 748
Hpy188III TCNNGA 5 cut(s) 54, 155, 221, 581, 705
Hpy8I GTNNAC 2 cut(s) 307, 560
Hpy99I CGWCG 1 cut(s) 60
HpyAV CCTTC 2 cut(s) 254, 715
HpyCH4III ACNGT 7 cut(s) 21, 311, 321, 365, 461, 971, 981
HpyCH4V TGCA 8 cut(s) 236, 413, 431, 602, 865, 899, 918, 987
HpyF10VI GCNNNNNNNGC 3 cut(s) 284, 696, 896
HpyF3I CTNAG 4 cut(s) 167, 511, 582, 695
Hsp92I GRCGYC 2 cut(s) 139, 733
Hsp92II CATG 1 cut(s) 392
HspAI GCGC 4 cut(s) 139, 733, 860, 1009
KasI GGCGCC 2 cut(s) 138, 732
Kpn2I TCCGGA 1 cut(s) 704
Ksp22I TGATCA 1 cut(s) 643
Kzo9I GATC 2 cut(s) 217, 643
LguI GCTCTTC 1 cut(s) 219
LmnI GCTCC 2 cut(s) 422, 622
Lsp1109I GCAGC 4 cut(s) 50, 248, 397, 849
LweI GCATC 2 cut(s) 905, 996
MaeI CTAG 1 cut(s) 959
MaeIII GTNAC 1 cut(s) 455
MalI GATC 2 cut(s) 219, 645
MboI GATC 2 cut(s) 217, 643
MboII GAAGA 7 cut(s) 90, 236, 362, 555, 605, 677, 695
MflI RGATCY 1 cut(s) 217
MluCI AATT 6 cut(s) 70, 176, 329, 505, 799, 828
Mly113I GGCGCC 2 cut(s) 139, 733
MnlI CCTC 6 cut(s) 180, 334, 533, 577, 601, 748
Mph1103I ATGCAT 1 cut(s) 920
MroI TCCGGA 1 cut(s) 704
MroXI GAANNNNTTC 1 cut(s) 37
MseI TTAA 4 cut(s) 630, 716, 803, 1018
MspCI CTTAAG 1 cut(s) 629
MspI CCGG 1 cut(s) 705
MwoI GCNNNNNNNGC 3 cut(s) 284, 696, 896
NarI GGCGCC 2 cut(s) 139, 733
NdeI CATATG 1 cut(s) 433
NdeII GATC 2 cut(s) 217, 643
NlaIII CATG 1 cut(s) 392
NlaIV GGNNCC 4 cut(s) 140, 219, 612, 734
NmuCI GTSAC 1 cut(s) 455
NsiI ATGCAT 1 cut(s) 920
PciSI GCTCTTC 1 cut(s) 219
PdmI GAANNNNTTC 1 cut(s) 37
PkrI GCNGC 4 cut(s) 65, 238, 412, 864
PluTI GGCGCC 2 cut(s) 142, 736
PspN4I GGNNCC 4 cut(s) 140, 219, 612, 734
PspPI GGNCC 1 cut(s) 11
PstI CTGCAG 1 cut(s) 238
PsuI RGATCY 1 cut(s) 217
RsaI GTAC 5 cut(s) 37, 48, 209, 308, 726
RsaNI GTAC 5 cut(s) 36, 47, 208, 307, 725
SapI GCTCTTC 1 cut(s) 219
SaqAI TTAA 4 cut(s) 630, 716, 803, 1018
SatI GCNGC 4 cut(s) 64, 237, 411, 863
Sau3AI GATC 2 cut(s) 217, 643
Sau96I GGNCC 1 cut(s) 11
ScaI AGTACT 1 cut(s) 37
SetI ASST 9 cut(s) 231, 241, 249, 412, 427, 612, 619, 726, 936
SfaNI GCATC 2 cut(s) 905, 996
SfcI CTRYAG 1 cut(s) 234
SfoI GGCGCC 2 cut(s) 140, 734
SmlI CTYRAG 1 cut(s) 629
SmoI CTYRAG 1 cut(s) 629
SpeI ACTAGT 1 cut(s) 958
Sse9I AATT 6 cut(s) 70, 176, 329, 505, 799, 828
SspDI GGCGCC 2 cut(s) 138, 732
SspMI CTAG 1 cut(s) 959
StyI CCWWGG 1 cut(s) 211
TaaI ACNGT 7 cut(s) 21, 311, 321, 365, 461, 971, 981
TaqI TCGA 1 cut(s) 55
TasI AATT 6 cut(s) 70, 176, 329, 505, 799, 828
TatI WGTACW 2 cut(s) 35, 306
Tru1I TTAA 4 cut(s) 630, 716, 803, 1018
Tru9I TTAA 4 cut(s) 630, 716, 803, 1018
TscAI CASTG 5 cut(s) 316, 466, 974, 984, 1011
TseFI GTSAC 1 cut(s) 455
TseI GCWGC 4 cut(s) 63, 236, 410, 862
Tsp45I GTSAC 1 cut(s) 455
TspDTI ATGAA 9 cut(s) 30, 206, 374, 399, 405, 419, 513, 585, 696
TspGWI ACGGA 2 cut(s) 540, 577
TspRI CASTG 5 cut(s) 316, 466, 974, 984, 1011
Vha464I CTTAAG 1 cut(s) 629
XapI RAATTY 2 cut(s) 70, 505
XmiI GTMKAC 1 cut(s) 559
XmnI GAANNNNTTC 1 cut(s) 37
XspI CTAG 1 cut(s) 959
ZrmI AGTACT 1 cut(s) 37
Zsp2I ATGCAT 1 cut(s) 920
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.