Rh5CG013500

Transcription initiation factor IIF subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5C
OG0001724
Physical Location & Seq
Forward (+)
828578 .. 833785
5208 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5CG013500.1

Sequence Viewer

Length: 1137 bp
ATGTCTCACAGGTTCAACTTTAACAAGGTTGCACAATATAAGCAACTTACTCTAGAGGAAGCAGAAGAGAAGATGAACAATAGGAAAAAGACTCAAGATGGATATGAAAGATGGATGATGAAATCTGGAACTAATGAACCTGGTCCACTTCGTGAGAAGGAAACTGGTGTGGCTGGTGGTAAGGGACGCAAAAAAATGACTGGTGATGATGATGAGGGAAATTTCTCTGATAAAGGGGAGGAAGATGAGGAAGAAGAGACGGCAAGGAAAAATAGACTTGGTCTCAACAAAAAAGCTGGTGATGACGAGGATGATGAAGGTGGAAATGAAGAAGATGACTTAGATGATGATAGCAGTGAGAAGGGTGATGATTGGGAGCACGAAGAAATATTCACCGATGATGATGAAGCTGTTGGTATTAATCCTGAGGAGAGAGAAGAATTCGAACCTGAGGTTCCAGCTCCTCCAGAAATTAAGCAGGATGATGACGATGATGATAATAATGAAGAGGAGGGTGGGCTCAGCAAATCAGGAAAAGAGTTGAAGAAGCTACTTGGGCGAAGTGGTGGCCTGAATGATTCAGATGCAGAGGACGACGACGACGACGATGATGATATGGATGATGATATTGCCTTGCCTCAAGCGCTGGCACCAAAGCAGAAGGATGCACCCAAACAGGAACCCGTTGACAACAGTCCTATTAAACCTGGGACTTCTGGATCTGCTGCTAAAGCAAACCCATCTTCCTCCAAGTCGGCAAAGGGAAAGAGAAAATTAAATGGTGATGACGCTAAAGCATCCAACAGTGCACCTCCCAAGAAGGTGAAGACTGAAAATGAGCAAAAATCAGTCAAAGAGGAGCCTGCTTCTGAAAGTAGTGTGCCTGCAAAAGGTAGTGCTGCATCCTCGAAAACGGGTTCAACACCATCTGGTGGTCCTACAGGTCCTGTATCTGAGGAAGAAATTAGGGCAGTTTTGATGCAAAAGTCACCCATCACCACACGTGATCTTGTTAATAACTTCCCCGGACGACTCAAATCCAAAGAGGAGAAGGATGCTTTTGCAGCAATCCTGAGGAAAATGTCTAGGATACAGAAGAACAACGGGATCAGCTATGTTGTATTGAGGGAGAAGTGA
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

378

Amino Acids

41.35

Weight (kDa)

4.57

Isoelectric Point (pI)

56.27

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TFIIF_alpha PF05793 5 - 376 4.2e-87 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 1 cut(s) 649
AccB7I CCANNNNNTGG 1 cut(s) 932
AclWI GGATC 2 cut(s) 727, 1115
AcsI RAATTY 2 cut(s) 220, 440
AcvI CACGTG 1 cut(s) 1004
AdeI CACNNNGTG 1 cut(s) 152
AfeI AGCGCT 1 cut(s) 645
AfiI CCNNNNNNNGG 2 cut(s) 890, 932
AflIII ACRYGT 1 cut(s) 1001
AgsI TTSAA 3 cut(s) 16, 544, 921
AjnI CCWGG 2 cut(s) 139, 706
AluBI AGCT 5 cut(s) 296, 410, 461, 550, 1113
AluI AGCT 5 cut(s) 296, 410, 461, 550, 1113
Alw21I GWGCWC 2 cut(s) 381, 811
Alw26I GTCTC 3 cut(s) 9, 251, 287
Alw44I GTGCAC 1 cut(s) 807
AlwI GGATC 2 cut(s) 727, 1115
AlwNI CAGNNNCTG 1 cut(s) 947
Aor51HI AGCGCT 1 cut(s) 645
AoxI GGCC 1 cut(s) 568
ApaLI GTGCAC 1 cut(s) 807
ApeKI GCWGC 3 cut(s) 725, 899, 1064
ApoI RAATTY 2 cut(s) 220, 440
AseI ATTAAT 1 cut(s) 420
AspLEI GCGC 1 cut(s) 646
AspS9I GGNCC 3 cut(s) 143, 935, 944
AsuC2I CCSGG 1 cut(s) 1026
AsuHPI GGTGA 8 cut(s) 215, 311, 377, 385, 794, 835, 981, 988
AsuII TTCGAA 1 cut(s) 444
AvaII GGWCC 3 cut(s) 143, 935, 944
AxyI CCTNAGG 3 cut(s) 426, 450, 1073
BaeGI GKGCMC 1 cut(s) 811
BanI GGYRCC 1 cut(s) 649
BanII GRGCYC 1 cut(s) 522
BbrPI CACGTG 1 cut(s) 1004
BbsI GAAGAC 1 cut(s) 833
Bbv12I GWGCWC 2 cut(s) 381, 811
BbvI GCAGC 3 cut(s) 712, 886, 1076
BccI CCATC 5 cut(s) 92, 105, 748, 934, 1001
BceAI ACGGC 1 cut(s) 276
BciT130I CCWGG 2 cut(s) 141, 708
BciVI GTATCC 1 cut(s) 1083
BcnI CCSGG 1 cut(s) 1026
BcoDI GTCTC 3 cut(s) 9, 251, 287
BfaI CTAG 2 cut(s) 53, 1086
BfmI CTRYAG 1 cut(s) 939
BfoI RGCGCY 1 cut(s) 647
BfuI GTATCC 1 cut(s) 1083
BisI GCNGC 3 cut(s) 726, 900, 1065
BlpI GCTNAGC 1 cut(s) 521
BlsI GCNGC 3 cut(s) 727, 901, 1066
Bme1390I CCNGG 3 cut(s) 141, 708, 1026
Bme18I GGWCC 3 cut(s) 143, 935, 944
BmgT120I GGNCC 3 cut(s) 143, 935, 944
BmiI GGNNCC 4 cut(s) 456, 651, 681, 861
BmrFI CCNGG 3 cut(s) 141, 708, 1026
BmsI GCATC 6 cut(s) 574, 655, 806, 911, 969, 1045
BoxI GACNNNNGTC 1 cut(s) 693
BpiI GAAGAC 1 cut(s) 833
BpmI CTGGAG 1 cut(s) 450
Bpu1102I GCTNAGC 1 cut(s) 521
Bpu14I TTCGAA 1 cut(s) 444
BpuEI CTTGAG 2 cut(s) 78, 624
BpuMI CCSGG 1 cut(s) 1026
BsaAI YACGTR 1 cut(s) 1004
BsaI GGTCTC 1 cut(s) 287
BsaJI CCNNGG 2 cut(s) 707, 1024
Bsc4I CCNNNNNNNGG 2 cut(s) 890, 932
Bse1I ACTGG 2 cut(s) 169, 205
Bse21I CCTNAGG 3 cut(s) 426, 450, 1073
BseBI CCWGG 2 cut(s) 141, 708
BseDI CCNNGG 2 cut(s) 707, 1024
BseGI GGATG 8 cut(s) 120, 316, 487, 625, 670, 797, 902, 1060
BseLI CCNNNNNNNGG 2 cut(s) 890, 932
BseMII CTCAG 5 cut(s) 417, 441, 535, 945, 1064
BseNI ACTGG 2 cut(s) 169, 205
BseRI GAGGAG 5 cut(s) 443, 453, 524, 872, 1061
BseSI GKGCMC 1 cut(s) 811
BseXI GCAGC 3 cut(s) 712, 886, 1076
BshFI GGCC 1 cut(s) 570
BshNI GGYRCC 1 cut(s) 649
BsiHKAI GWGCWC 2 cut(s) 381, 811
BsiSI CCGG 1 cut(s) 1026
BslFI GGGAC 2 cut(s) 198, 724
BslI CCNNNNNNNGG 2 cut(s) 890, 932
BsmAI GTCTC 3 cut(s) 9, 251, 287
BsmBI CGTCTC 1 cut(s) 251
BsmFI GGGAC 2 cut(s) 198, 724
BsnI GGCC 1 cut(s) 570
Bso31I GGTCTC 1 cut(s) 287
Bsp119I TTCGAA 1 cut(s) 444
Bsp1286I GDGCHC 3 cut(s) 381, 522, 811
Bsp143I GATC 3 cut(s) 719, 1006, 1107
Bsp1720I GCTNAGC 1 cut(s) 521
BspANI GGCC 1 cut(s) 570
BspCNI CTCAG 5 cut(s) 418, 442, 534, 946, 1065
BspLI GGNNCC 4 cut(s) 456, 651, 681, 861
BspPI GGATC 2 cut(s) 727, 1115
BspT104I TTCGAA 1 cut(s) 444
BspT107I GGYRCC 1 cut(s) 649
BspTNI GGTCTC 1 cut(s) 287
BsrI ACTGG 2 cut(s) 169, 205
BssECI CCNNGG 2 cut(s) 707, 1024
BssMI GATC 3 cut(s) 719, 1006, 1107
Bst2UI CCWGG 2 cut(s) 141, 708
Bst4CI ACNGT 2 cut(s) 695, 806
Bst6I CTCTTC 3 cut(s) 60, 249, 501
BstBAI YACGTR 1 cut(s) 1004
BstBI TTCGAA 1 cut(s) 444
BstC8I GCNNGC 3 cut(s) 648, 864, 885
BstDEI CTNAG 6 cut(s) 340, 426, 450, 521, 954, 1073
BstENI CCTNNNNNAGG 1 cut(s) 888
BstF5I GGATG 8 cut(s) 120, 316, 487, 625, 670, 797, 902, 1060
BstH2I RGCGCY 1 cut(s) 647
BstHHI GCGC 1 cut(s) 646
BstKTI GATC 3 cut(s) 722, 1009, 1110
BstMAI GTCTC 3 cut(s) 9, 251, 287
BstMBI GATC 3 cut(s) 719, 1006, 1107
BstMWI GCNNNNNNNGC 4 cut(s) 556, 643, 731, 1064
BstNI CCWGG 2 cut(s) 141, 708
BstPAI GACNNNNGTC 1 cut(s) 693
BstSCI CCNGG 3 cut(s) 139, 706, 1024
BstSFI CTRYAG 1 cut(s) 939
BstSLI GKGCMC 1 cut(s) 811
BstV1I GCAGC 3 cut(s) 712, 886, 1076
BstV2I GAAGAC 1 cut(s) 833
BstX2I RGATCY 1 cut(s) 719
BstYI RGATCY 1 cut(s) 719
Bsu36I CCTNAGG 3 cut(s) 426, 450, 1073
BsuI GTATCC 1 cut(s) 1083
BsuRI GGCC 1 cut(s) 570
BtsCI GGATG 8 cut(s) 120, 316, 487, 625, 670, 797, 902, 1060
BtsI GCAGTG 1 cut(s) 361
BtsIMutI CAGTG 2 cut(s) 361, 811
Cac8I GCNNGC 3 cut(s) 648, 864, 885
CaiI CAGNNNCTG 1 cut(s) 947
CfoI GCGC 1 cut(s) 646
Cfr13I GGNCC 3 cut(s) 143, 935, 944
CseI GACGC 2 cut(s) 195, 797
CsiI ACCWGGT 1 cut(s) 139
CviJI RGCY 9 cut(s) 173, 296, 410, 461, 520, 550, 570, 862, 1113
CviKI_1 RGCY 9 cut(s) 173, 296, 410, 461, 520, 550, 570, 862, 1113
DdeI CTNAG 6 cut(s) 340, 426, 450, 521, 954, 1073
DpnI GATC 3 cut(s) 721, 1008, 1109
DpnII GATC 3 cut(s) 719, 1006, 1107
DraIII CACNNNGTG 1 cut(s) 152
Eam1104I CTCTTC 3 cut(s) 60, 249, 501
EarI CTCTTC 3 cut(s) 60, 249, 501
Eco24I GRGCYC 1 cut(s) 522
Eco31I GGTCTC 1 cut(s) 287
Eco47I GGWCC 3 cut(s) 143, 935, 944
Eco47III AGCGCT 1 cut(s) 645
Eco72I CACGTG 1 cut(s) 1004
Eco81I CCTNAGG 3 cut(s) 426, 450, 1073
EcoNI CCTNNNNNAGG 1 cut(s) 888
EcoO109I RGGNCCY 1 cut(s) 944
EcoRI GAATTC 1 cut(s) 440
EcoRII CCWGG 2 cut(s) 139, 706
EcoT38I GRGCYC 1 cut(s) 522
Esp3I CGTCTC 1 cut(s) 251
FaiI YATR 4 cut(s) 39, 105, 617, 1116
FaqI GGGAC 2 cut(s) 198, 724
Fnu4HI GCNGC 3 cut(s) 726, 900, 1065
FokI GGATG 8 cut(s) 127, 323, 494, 632, 677, 784, 889, 1067
FriOI GRGCYC 1 cut(s) 522
Fsp4HI GCNGC 3 cut(s) 726, 900, 1065
FspBI CTAG 2 cut(s) 53, 1086
GlaI GCGC 1 cut(s) 645
GluI GCNGC 3 cut(s) 726, 900, 1065
GsuI CTGGAG 1 cut(s) 450
HaeII RGCGCY 1 cut(s) 647
HaeIII GGCC 1 cut(s) 570
HapII CCGG 1 cut(s) 1026
HgaI GACGC 2 cut(s) 195, 797
HhaI GCGC 1 cut(s) 646
Hin6I GCGC 1 cut(s) 644
HinP1I GCGC 1 cut(s) 644
HincII GTYRAC 1 cut(s) 688
HindII GTYRAC 1 cut(s) 688
HinfI GANTC 3 cut(s) 91, 578, 1032
HpaII CCGG 1 cut(s) 1026
HphI GGTGA 8 cut(s) 215, 311, 377, 385, 794, 835, 981, 988
Hpy166II GTNNAC 3 cut(s) 146, 688, 809
Hpy188I TCNGA 4 cut(s) 229, 583, 871, 955
Hpy188III TCNNGA 9 cut(s) 53, 95, 126, 152, 425, 467, 531, 717, 1072
Hpy8I GTNNAC 3 cut(s) 146, 688, 809
Hpy99I CGWCG 4 cut(s) 599, 602, 605, 608
HpyAV CCTTC 6 cut(s) 151, 311, 355, 655, 814, 1045
HpyCH4III ACNGT 2 cut(s) 695, 806
HpyCH4IV ACGT 1 cut(s) 1003
HpyCH4V TGCA 8 cut(s) 32, 587, 668, 809, 887, 902, 982, 1064
HpyF10VI GCNNNNNNNGC 4 cut(s) 556, 643, 731, 1064
HpyF3I CTNAG 6 cut(s) 340, 426, 450, 521, 954, 1073
HpySE526I ACGT 1 cut(s) 1003
HspAI GCGC 1 cut(s) 644
Kzo9I GATC 3 cut(s) 719, 1006, 1107
LmnI GCTCC 3 cut(s) 376, 466, 859
Lsp1109I GCAGC 3 cut(s) 712, 886, 1076
LweI GCATC 6 cut(s) 574, 655, 806, 911, 969, 1045
MabI ACCWGGT 1 cut(s) 139
MaeI CTAG 2 cut(s) 53, 1086
MaeII ACGT 1 cut(s) 1003
MaeIII GTNAC 1 cut(s) 987
MalI GATC 3 cut(s) 721, 1008, 1109
MboI GATC 3 cut(s) 719, 1006, 1107
MflI RGATCY 1 cut(s) 719
MhlI GDGCHC 3 cut(s) 381, 522, 811
MluCI AATT 5 cut(s) 220, 440, 471, 773, 963
MlyI GAGTC 2 cut(s) 85, 1026
MmeI TCCRAC 1 cut(s) 825
MseI TTAA 6 cut(s) 21, 420, 474, 702, 776, 1014
MspI CCGG 1 cut(s) 1026
MspR9I CCNGG 3 cut(s) 141, 708, 1026
MvaI CCWGG 2 cut(s) 141, 708
MwoI GCNNNNNNNGC 4 cut(s) 556, 643, 731, 1064
NciI CCSGG 1 cut(s) 1026
NdeII GATC 3 cut(s) 719, 1006, 1107
NlaIV GGNNCC 4 cut(s) 456, 651, 681, 861
NmuCI GTSAC 1 cut(s) 987
NspV TTCGAA 1 cut(s) 444
PcsI WCGNNNNNNNCGW 2 cut(s) 600, 603
PfeI GAWTC 1 cut(s) 578
PflFI GACNNNGTC 1 cut(s) 279
PflMI CCANNNNNTGG 1 cut(s) 932
PkrI GCNGC 3 cut(s) 727, 901, 1066
PleI GAGTC 2 cut(s) 85, 1026
PmaCI CACGTG 1 cut(s) 1004
PmlI CACGTG 1 cut(s) 1004
PpsI GAGTC 2 cut(s) 85, 1026
Ppu21I YACGTR 1 cut(s) 1004
PpuMI RGGWCCY 1 cut(s) 944
PshAI GACNNNNGTC 1 cut(s) 693
PshBI ATTAAT 1 cut(s) 420
Psp5II RGGWCCY 1 cut(s) 944
Psp6I CCWGG 2 cut(s) 139, 706
PspCI CACGTG 1 cut(s) 1004
PspGI CCWGG 2 cut(s) 139, 706
PspN4I GGNNCC 4 cut(s) 456, 651, 681, 861
PspPI GGNCC 3 cut(s) 143, 935, 944
PspPPI RGGWCCY 1 cut(s) 944
PstNI CAGNNNCTG 1 cut(s) 947
PsuI RGATCY 1 cut(s) 719
PsyI GACNNNGTC 1 cut(s) 279
SaqAI TTAA 6 cut(s) 21, 420, 474, 702, 776, 1014
SatI GCNGC 3 cut(s) 726, 900, 1065
Sau3AI GATC 3 cut(s) 719, 1006, 1107
Sau96I GGNCC 3 cut(s) 143, 935, 944
SchI GAGTC 2 cut(s) 85, 1026
ScrFI CCNGG 3 cut(s) 141, 708, 1026
SduI GDGCHC 3 cut(s) 381, 522, 811
SexAI ACCWGGT 1 cut(s) 139
SfaNI GCATC 6 cut(s) 574, 655, 806, 911, 969, 1045
SfcI CTRYAG 1 cut(s) 939
SfuI TTCGAA 1 cut(s) 444
SinI GGWCC 3 cut(s) 143, 935, 944
SmlI CTYRAG 2 cut(s) 93, 639
SmoI CTYRAG 2 cut(s) 93, 639
Sse9I AATT 5 cut(s) 220, 440, 471, 773, 963
SspI AATATT 1 cut(s) 390
SspMI CTAG 2 cut(s) 53, 1086
StyD4I CCNGG 3 cut(s) 139, 706, 1024
TaaI ACNGT 2 cut(s) 695, 806
TaiI ACGT 1 cut(s) 1006
TaqI TCGA 2 cut(s) 444, 908
TasI AATT 5 cut(s) 220, 440, 471, 773, 963
TfiI GAWTC 1 cut(s) 578
Tru1I TTAA 6 cut(s) 21, 420, 474, 702, 776, 1014
Tru9I TTAA 6 cut(s) 21, 420, 474, 702, 776, 1014
TscAI CASTG 2 cut(s) 361, 811
TseFI GTSAC 1 cut(s) 987
TseI GCWGC 3 cut(s) 725, 899, 1064
Tsp45I GTSAC 1 cut(s) 987
TspDTI ATGAA 8 cut(s) 89, 120, 134, 150, 330, 342, 420, 519
TspRI CASTG 2 cut(s) 361, 811
Tth111I GACNNNGTC 1 cut(s) 279
Van91I CCANNNNNTGG 1 cut(s) 932
VneI GTGCAC 1 cut(s) 807
VpaK11BI GGWCC 3 cut(s) 143, 935, 944
VspI ATTAAT 1 cut(s) 420
XagI CCTNNNNNAGG 1 cut(s) 888
XapI RAATTY 2 cut(s) 220, 440
XbaI TCTAGA 1 cut(s) 52
XspI CTAG 2 cut(s) 53, 1086
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.