Rw2G040560

Transcription initiation factor IIF subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr2
OG0001724
Physical Location & Seq
Forward (+)
66155662 .. 66162293
6632 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw2G040560.1

Sequence Viewer

Length: 900 bp
ATGGGTCTTGGAGGACGAAACTGGCCAGTCTCAGTACAACGGTCAACTCGAAGGTGCACAGTCAGCAATTTACTACCTACTAATGTTGCAAGAAAGGAGTTTTCTGCTATTCCTGCTGGTTCGTGGTTCAACTTTAACAAGGTTGCACAATATAAGCAACTTACTCTAGAGGAAGCAGAAGAGAAGATGAACAATAGGAAAAAGACACAAGATGGATATGAAAGATGGATGATGAAGTCTGGAACTAATGAACCTGGTCCACTTCGTGAGAAGGAAACTGGTGTGGCTGGTGGTAAGGGACGCAAAAAAATGACTGGTGATGATGAGGAGGGAAATTTCTCTGATAAAGGGGAGGAAGATGAGGAAGAAGAGACAGCAAGGAAAAATAGACTTGGTCTCAACAAAAAAGGTGGTGATGACGAGGATGATGAAGGTGGAAATGAAGAAGATGACTTAGATGATGATAGCAGTGAGAAGGGTGATGATTGGGAGAACGAAGAAATATTCACCGATGATGATGAAGCTGTTGGTATTAATCCTGAGGAGAGAGAAGAATTCGAACCTGAGGTTCCAGCTCCTCCAGAAATTAAGCAGAAAACCAACTTTCGTTTCACAGGTGGAGGGATTGACATGGCTGGAGAACGAAGAAAAAAAACAAGCAAAAAGGGAGGTCAGCAACATCCTGTAATTAGCAAAAACAATACTCAAAATAGATCACCAGCTGTGATAAAAGGATTAAAAGCATGCATGTCAGCTCCTCTGGATACATATTTTACAGATTTGACCCCATTAACAGTGAATAATCAAGTTATCTGCGCCCACCATTTGTTGAGCCACTTCCAGCCTCCTACTAGTGACGATCACAGCACCGCCACTATCCCAAGGCAAGCCATCCGATAG
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

299

Amino Acids

33.42

Weight (kDa)

4.97

Isoelectric Point (pI)

51.7

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TFIIF_alpha PF05793 29 - 200 1.4e-43 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)
AciI CCGC 1 cut(s) 870
AcoI YGGCCR 1 cut(s) 23
AcsI RAATTY 2 cut(s) 334, 554
AdeI CACNNNGTG 1 cut(s) 266
AfaI GTAC 1 cut(s) 36
AgsI TTSAA 1 cut(s) 130
AhlI ACTAGT 1 cut(s) 851
AjnI CCWGG 1 cut(s) 253
AjuI GAANNNNNNNTTGG 2 cut(s) 593, 625
AluBI AGCT 4 cut(s) 524, 575, 722, 755
AluI AGCT 4 cut(s) 524, 575, 722, 755
Alw21I GWGCWC 1 cut(s) 59
Alw26I GTCTC 3 cut(s) 34, 365, 401
Alw44I GTGCAC 1 cut(s) 55
AoxI GGCC 1 cut(s) 23
ApaLI GTGCAC 1 cut(s) 55
ApoI RAATTY 2 cut(s) 334, 554
AseI ATTAAT 1 cut(s) 534
AspLEI GCGC 1 cut(s) 818
AspS9I GGNCC 1 cut(s) 257
AsuHPI GGTGA 5 cut(s) 329, 425, 491, 499, 708
AsuII TTCGAA 1 cut(s) 558
AvaII GGWCC 1 cut(s) 257
AxyI CCTNAGG 2 cut(s) 540, 564
BaeGI GKGCMC 1 cut(s) 59
BalI TGGCCA 1 cut(s) 25
Bbv12I GWGCWC 1 cut(s) 59
BccI CCATC 3 cut(s) 206, 219, 899
BciT130I CCWGG 1 cut(s) 255
BciVI GTATCC 1 cut(s) 757
BcoDI GTCTC 3 cut(s) 34, 365, 401
BcuI ACTAGT 1 cut(s) 851
BfaI CTAG 2 cut(s) 167, 852
BfuI GTATCC 1 cut(s) 757
Bme1390I CCNGG 1 cut(s) 255
Bme18I GGWCC 1 cut(s) 257
BmgT120I GGNCC 1 cut(s) 257
BmiI GGNNCC 1 cut(s) 570
BmrFI CCNGG 1 cut(s) 255
BpmI CTGGAG 2 cut(s) 564, 657
Bpu14I TTCGAA 1 cut(s) 558
BsaI GGTCTC 1 cut(s) 401
BsaJI CCNNGG 1 cut(s) 881
Bse1I ACTGG 4 cut(s) 26, 26, 283, 319
Bse21I CCTNAGG 2 cut(s) 540, 564
BseBI CCWGG 1 cut(s) 255
BseDI CCNNGG 1 cut(s) 881
BseGI GGATG 4 cut(s) 234, 430, 679, 891
BseMII CTCAG 3 cut(s) 45, 531, 555
BseNI ACTGG 4 cut(s) 26, 26, 283, 319
BseRI GAGGAG 4 cut(s) 341, 557, 567, 747
BseSI GKGCMC 1 cut(s) 59
BshFI GGCC 1 cut(s) 25
BsiHKAI GWGCWC 1 cut(s) 59
BslFI GGGAC 1 cut(s) 312
BsmAI GTCTC 3 cut(s) 34, 365, 401
BsmFI GGGAC 1 cut(s) 312
BsnI GGCC 1 cut(s) 25
Bso31I GGTCTC 1 cut(s) 401
Bsp119I TTCGAA 1 cut(s) 558
Bsp1286I GDGCHC 1 cut(s) 59
Bsp143I GATC 2 cut(s) 713, 859
BspACI CCGC 1 cut(s) 870
BspANI GGCC 1 cut(s) 25
BspCNI CTCAG 3 cut(s) 44, 532, 556
BspLI GGNNCC 1 cut(s) 570
BspT104I TTCGAA 1 cut(s) 558
BspTNI GGTCTC 1 cut(s) 401
BsrI ACTGG 4 cut(s) 26, 26, 283, 319
BssECI CCNNGG 1 cut(s) 881
BssMI GATC 2 cut(s) 713, 859
BssT1I CCWWGG 1 cut(s) 881
Bst2UI CCWGG 1 cut(s) 255
Bst4CI ACNGT 3 cut(s) 42, 61, 796
Bst6I CTCTTC 2 cut(s) 174, 363
BstBI TTCGAA 1 cut(s) 558
BstC8I GCNNGC 2 cut(s) 745, 888
BstDEI CTNAG 4 cut(s) 31, 454, 540, 564
BstF5I GGATG 4 cut(s) 234, 430, 679, 891
BstHHI GCGC 1 cut(s) 818
BstKTI GATC 2 cut(s) 716, 862
BstMAI GTCTC 3 cut(s) 34, 365, 401
BstMBI GATC 2 cut(s) 713, 859
BstMWI GCNNNNNNNGC 2 cut(s) 63, 113
BstNI CCWGG 1 cut(s) 255
BstNSI RCATGY 2 cut(s) 747, 751
BstSCI CCNGG 1 cut(s) 253
BstSLI GKGCMC 1 cut(s) 59
Bsu36I CCTNAGG 2 cut(s) 540, 564
BsuI GTATCC 1 cut(s) 757
BsuRI GGCC 1 cut(s) 25
BtsCI GGATG 4 cut(s) 234, 430, 679, 891
BtsI GCAGTG 1 cut(s) 475
BtsIMutI CAGTG 2 cut(s) 475, 801
Cac8I GCNNGC 2 cut(s) 745, 888
CfoI GCGC 1 cut(s) 818
Cfr13I GGNCC 1 cut(s) 257
CseI GACGC 1 cut(s) 309
CsiI ACCWGGT 1 cut(s) 253
Csp6I GTAC 1 cut(s) 35
CspCI CAANNNNNGTGG 2 cut(s) 391, 426
CviAII CATG 3 cut(s) 631, 744, 748
CviQI GTAC 1 cut(s) 35
DdeI CTNAG 4 cut(s) 31, 454, 540, 564
DpnI GATC 2 cut(s) 715, 861
DpnII GATC 2 cut(s) 713, 859
DraIII CACNNNGTG 1 cut(s) 266
EaeI YGGCCR 1 cut(s) 23
Eam1104I CTCTTC 2 cut(s) 174, 363
EarI CTCTTC 2 cut(s) 174, 363
Eco130I CCWWGG 1 cut(s) 881
Eco31I GGTCTC 1 cut(s) 401
Eco47I GGWCC 1 cut(s) 257
Eco81I CCTNAGG 2 cut(s) 540, 564
EcoRI GAATTC 1 cut(s) 554
EcoRII CCWGG 1 cut(s) 253
EcoT14I CCWWGG 1 cut(s) 881
EcoT22I ATGCAT 1 cut(s) 749
ErhI CCWWGG 1 cut(s) 881
FaeI CATG 3 cut(s) 634, 747, 751
FaiI YATR 6 cut(s) 153, 219, 632, 745, 749, 769
FaqI GGGAC 1 cut(s) 312
FatI CATG 3 cut(s) 630, 743, 747
FokI GGATG 4 cut(s) 241, 437, 666, 878
FspBI CTAG 2 cut(s) 167, 852
GlaI GCGC 1 cut(s) 817
GsuI CTGGAG 2 cut(s) 564, 657
HaeIII GGCC 1 cut(s) 25
HgaI GACGC 1 cut(s) 309
HhaI GCGC 1 cut(s) 818
Hin1II CATG 3 cut(s) 634, 747, 751
Hin6I GCGC 1 cut(s) 816
HinP1I GCGC 1 cut(s) 816
HincII GTYRAC 1 cut(s) 45
HindII GTYRAC 1 cut(s) 45
HphI GGTGA 5 cut(s) 329, 425, 491, 499, 708
Hpy166II GTNNAC 3 cut(s) 45, 57, 260
Hpy188I TCNGA 2 cut(s) 343, 896
Hpy188III TCNNGA 6 cut(s) 167, 240, 266, 539, 581, 761
Hpy8I GTNNAC 3 cut(s) 45, 57, 260
HpyAV CCTTC 4 cut(s) 45, 265, 425, 469
HpyCH4III ACNGT 3 cut(s) 42, 61, 796
HpyCH4V TGCA 4 cut(s) 57, 89, 146, 747
HpyF10VI GCNNNNNNNGC 2 cut(s) 63, 113
HpyF3I CTNAG 4 cut(s) 31, 454, 540, 564
Hsp92II CATG 3 cut(s) 634, 747, 751
HspAI GCGC 1 cut(s) 816
Kzo9I GATC 2 cut(s) 713, 859
LmnI GCTCC 2 cut(s) 580, 760
MabI ACCWGGT 1 cut(s) 253
MaeI CTAG 2 cut(s) 167, 852
MaeIII GTNAC 1 cut(s) 854
MalI GATC 2 cut(s) 715, 861
MboI GATC 2 cut(s) 713, 859
MhlI GDGCHC 1 cut(s) 59
MlsI TGGCCA 1 cut(s) 25
MluCI AATT 5 cut(s) 67, 334, 554, 585, 687
MluNI TGGCCA 1 cut(s) 25
Mox20I TGGCCA 1 cut(s) 25
Mph1103I ATGCAT 1 cut(s) 749
MscI TGGCCA 1 cut(s) 25
MseI TTAA 5 cut(s) 135, 534, 588, 737, 791
Msp20I TGGCCA 1 cut(s) 25
MspA1I CMGCKG 1 cut(s) 722
MspR9I CCNGG 1 cut(s) 255
MvaI CCWGG 1 cut(s) 255
MwoI GCNNNNNNNGC 2 cut(s) 63, 113
NdeII GATC 2 cut(s) 713, 859
NlaIII CATG 3 cut(s) 634, 747, 751
NlaIV GGNNCC 1 cut(s) 570
NmuCI GTSAC 1 cut(s) 854
NsiI ATGCAT 1 cut(s) 749
NspI RCATGY 2 cut(s) 747, 751
NspV TTCGAA 1 cut(s) 558
PaeI GCATGC 1 cut(s) 747
PcsI WCGNNNNNNNCGW 1 cut(s) 46
PflFI GACNNNGTC 1 cut(s) 393
PshBI ATTAAT 1 cut(s) 534
Psp6I CCWGG 1 cut(s) 253
PspGI CCWGG 1 cut(s) 253
PspN4I GGNNCC 1 cut(s) 570
PspPI GGNCC 1 cut(s) 257
PsyI GACNNNGTC 1 cut(s) 393
PvuII CAGCTG 1 cut(s) 722
RsaI GTAC 1 cut(s) 36
RsaNI GTAC 1 cut(s) 35
SaqAI TTAA 5 cut(s) 135, 534, 588, 737, 791
Sau3AI GATC 2 cut(s) 713, 859
Sau96I GGNCC 1 cut(s) 257
ScrFI CCNGG 1 cut(s) 255
SduI GDGCHC 1 cut(s) 59
SexAI ACCWGGT 1 cut(s) 253
SfuI TTCGAA 1 cut(s) 558
SinI GGWCC 1 cut(s) 257
SpeI ACTAGT 1 cut(s) 851
SphI GCATGC 1 cut(s) 747
Sse9I AATT 5 cut(s) 67, 334, 554, 585, 687
SsiI CCGC 1 cut(s) 870
SspI AATATT 1 cut(s) 504
SspMI CTAG 2 cut(s) 167, 852
StyD4I CCNGG 1 cut(s) 253
StyI CCWWGG 1 cut(s) 881
TaaI ACNGT 3 cut(s) 42, 61, 796
TaqI TCGA 2 cut(s) 49, 558
TasI AATT 5 cut(s) 67, 334, 554, 585, 687
TatI WGTACW 1 cut(s) 34
Tru1I TTAA 5 cut(s) 135, 534, 588, 737, 791
Tru9I TTAA 5 cut(s) 135, 534, 588, 737, 791
TscAI CASTG 2 cut(s) 475, 801
TseFI GTSAC 1 cut(s) 854
Tsp45I GTSAC 1 cut(s) 854
TspDTI ATGAA 7 cut(s) 203, 234, 248, 264, 444, 456, 534
TspRI CASTG 2 cut(s) 475, 801
Tth111I GACNNNGTC 1 cut(s) 393
VneI GTGCAC 1 cut(s) 55
VpaK11BI GGWCC 1 cut(s) 257
VspI ATTAAT 1 cut(s) 534
XapI RAATTY 2 cut(s) 334, 554
XbaI TCTAGA 1 cut(s) 166
XceI RCATGY 2 cut(s) 747, 751
XspI CTAG 2 cut(s) 167, 852
Zsp2I ATGCAT 1 cut(s) 749
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.