Rh5AG012500

Transcription initiation factor IIF subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0001724
Physical Location & Seq
Forward (+)
828578 .. 835145
6568 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG012500.1

Sequence Viewer

Length: 1167 bp
ATGTTGCAAGGAAAGGAGTTTTCTGCTATTCCTGCTGGTTCGTGGTTCAACTTTAACAAGGTTGCACAATATAAGCAACTTACTCTAGAGGAAGCAGAAGAGAAGATGAACAATAGGAAAAAGACTCAAGATGGATATGAAAGATGGATGATGAAATCTGGAACTAATGAACCTGGTCCACTTCGTGAGAAGGAAACTGGTGTGGCTGGTGGTAAGGGACGCAAAAAAATGACTGGTGATGATGATGAGGGAAATTTCTCTGATAAAGGGGAGGAAGATGAGGAAGAAGAGACGGCAAGGAAAAATAGACTTGGTCTCAACAAAAAAGCTGGTGATGACGAGGATGATGAAGGTGGAAATGAAGAAGATGACTTAGATGATGATAGCAGTGAGAAGGGTGATGATTGGGAGCACGAAGAAATATTCACCGATGATGATGAAGCTGTTGGTATTAATCCTGAGGAGAGAGAAGAATTCGAACCTGAGGTTCCAGCTCCTCCAGAAATTAAGCAGGATGATGACGATGATGATAATAATGAAGAGGAGGGTGGGCTCAGCAAATCAGGAAAAGAGTTGAAGAAGCTACTTGGGCGAAGTGGTGGCCTGAATGATTCAGATGCAGAGGACGACGACGACGACGATGATGATATGGATGATGATATTGCCTTGCCTCAAGCGCTGGCACCAAAGCAGAAGGATGCACCCAAACAGGAACCCGTTGACAACAGTCCTATTAAACCTGGGACTTCTGGATCTGCTGCTAAAGCAAACCCATCTTCCTCCAAGTCGGCAAAGGGAAAGAGAAAATTAAATGGTGATGACGCTAAAGCATCCAACAGTGCACCTCCCAAGAAGGTGAAGACTGAAAATGAGCAAAAATCAGTCAAAGAGGAGCCTGCTTCTGAAAGTAGTGTGCCTGCAAAAGGTAGTGCTGCATCCTCGAAAACGGGTTCAACACCATCTGGTGGTCCTACAGGTCCTGTATCTGAGGAAGAAATTAGGGCAGTTTTGATGCAAAAGTCACCCATCACCACACGTGATCTTGTTAATAACTTCCCCGGACGACTCAAATCCAAAGAGGTATGGTCTTTTTGTTTATTATGTTTTGTACTGCTGTTCAACTCATTTTCCAGCATTTGCCTTCACCCTGTTACCATCACTGAATAA
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

388

Amino Acids

42.28

Weight (kDa)

4.45

Isoelectric Point (pI)

52.98

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TFIIF_alpha PF05793 3 - 360 3.4e-86 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) 682
AccB7I CCANNNNNTGG 1 cut(s) 965
AclWI GGATC 1 cut(s) 760
AcsI RAATTY 2 cut(s) 253, 473
AcvI CACGTG 1 cut(s) 1037
AdeI CACNNNGTG 1 cut(s) 185
AfaI GTAC 1 cut(s) 1110
AfeI AGCGCT 1 cut(s) 678
AfiI CCNNNNNNNGG 2 cut(s) 923, 965
AflIII ACRYGT 1 cut(s) 1034
AgsI TTSAA 4 cut(s) 49, 577, 954, 1120
AjnI CCWGG 2 cut(s) 172, 739
AluBI AGCT 4 cut(s) 329, 443, 494, 583
AluI AGCT 4 cut(s) 329, 443, 494, 583
Alw21I GWGCWC 2 cut(s) 414, 844
Alw26I GTCTC 2 cut(s) 284, 320
Alw44I GTGCAC 1 cut(s) 840
AlwI GGATC 1 cut(s) 760
AlwNI CAGNNNCTG 1 cut(s) 980
Aor51HI AGCGCT 1 cut(s) 678
AoxI GGCC 1 cut(s) 601
ApaLI GTGCAC 1 cut(s) 840
ApeKI GCWGC 2 cut(s) 758, 932
ApoI RAATTY 2 cut(s) 253, 473
AseI ATTAAT 1 cut(s) 453
AspLEI GCGC 1 cut(s) 679
AspS9I GGNCC 3 cut(s) 176, 968, 977
AsuC2I CCSGG 1 cut(s) 1059
AsuHPI GGTGA 9 cut(s) 248, 344, 410, 418, 827, 868, 1014, 1021, 1136
AsuII TTCGAA 1 cut(s) 477
AvaII GGWCC 3 cut(s) 176, 968, 977
AxyI CCTNAGG 2 cut(s) 459, 483
BaeGI GKGCMC 1 cut(s) 844
BanI GGYRCC 1 cut(s) 682
BanII GRGCYC 1 cut(s) 555
BbrPI CACGTG 1 cut(s) 1037
BbsI GAAGAC 1 cut(s) 866
Bbv12I GWGCWC 2 cut(s) 414, 844
BbvI GCAGC 2 cut(s) 745, 919
BccI CCATC 6 cut(s) 125, 138, 781, 967, 1034, 1163
BceAI ACGGC 1 cut(s) 309
BciT130I CCWGG 2 cut(s) 174, 741
BcnI CCSGG 1 cut(s) 1059
BcoDI GTCTC 2 cut(s) 284, 320
BfaI CTAG 1 cut(s) 86
BfmI CTRYAG 1 cut(s) 972
BfoI RGCGCY 1 cut(s) 680
BisI GCNGC 2 cut(s) 759, 933
BlpI GCTNAGC 1 cut(s) 554
BlsI GCNGC 2 cut(s) 760, 934
Bme1390I CCNGG 3 cut(s) 174, 741, 1059
Bme18I GGWCC 3 cut(s) 176, 968, 977
BmgT120I GGNCC 3 cut(s) 176, 968, 977
BmiI GGNNCC 4 cut(s) 489, 684, 714, 894
BmrFI CCNGG 3 cut(s) 174, 741, 1059
BmsI GCATC 5 cut(s) 607, 688, 839, 944, 1002
BoxI GACNNNNGTC 1 cut(s) 726
BpiI GAAGAC 1 cut(s) 866
BpmI CTGGAG 1 cut(s) 483
Bpu1102I GCTNAGC 1 cut(s) 554
Bpu14I TTCGAA 1 cut(s) 477
BpuEI CTTGAG 2 cut(s) 111, 657
BpuMI CCSGG 1 cut(s) 1059
BsaAI YACGTR 1 cut(s) 1037
BsaI GGTCTC 1 cut(s) 320
BsaJI CCNNGG 2 cut(s) 740, 1057
Bsc4I CCNNNNNNNGG 2 cut(s) 923, 965
Bse1I ACTGG 2 cut(s) 202, 238
Bse21I CCTNAGG 2 cut(s) 459, 483
BseBI CCWGG 2 cut(s) 174, 741
BseDI CCNNGG 2 cut(s) 740, 1057
BseGI GGATG 7 cut(s) 153, 349, 520, 658, 703, 830, 935
BseLI CCNNNNNNNGG 2 cut(s) 923, 965
BseMII CTCAG 4 cut(s) 450, 474, 568, 978
BseNI ACTGG 2 cut(s) 202, 238
BseRI GAGGAG 4 cut(s) 476, 486, 557, 905
BseSI GKGCMC 1 cut(s) 844
BseXI GCAGC 2 cut(s) 745, 919
BshFI GGCC 1 cut(s) 603
BshNI GGYRCC 1 cut(s) 682
BsiHKAI GWGCWC 2 cut(s) 414, 844
BsiSI CCGG 1 cut(s) 1059
BslFI GGGAC 2 cut(s) 231, 757
BslI CCNNNNNNNGG 2 cut(s) 923, 965
BsmAI GTCTC 2 cut(s) 284, 320
BsmBI CGTCTC 1 cut(s) 284
BsmFI GGGAC 2 cut(s) 231, 757
BsnI GGCC 1 cut(s) 603
Bso31I GGTCTC 1 cut(s) 320
Bsp119I TTCGAA 1 cut(s) 477
Bsp1286I GDGCHC 3 cut(s) 414, 555, 844
Bsp143I GATC 2 cut(s) 752, 1039
Bsp1720I GCTNAGC 1 cut(s) 554
BspANI GGCC 1 cut(s) 603
BspCNI CTCAG 4 cut(s) 451, 475, 567, 979
BspLI GGNNCC 4 cut(s) 489, 684, 714, 894
BspPI GGATC 1 cut(s) 760
BspT104I TTCGAA 1 cut(s) 477
BspT107I GGYRCC 1 cut(s) 682
BspTNI GGTCTC 1 cut(s) 320
BsrI ACTGG 2 cut(s) 202, 238
BssECI CCNNGG 2 cut(s) 740, 1057
BssMI GATC 2 cut(s) 752, 1039
Bst2UI CCWGG 2 cut(s) 174, 741
Bst4CI ACNGT 2 cut(s) 728, 839
Bst6I CTCTTC 3 cut(s) 93, 282, 534
BstBAI YACGTR 1 cut(s) 1037
BstBI TTCGAA 1 cut(s) 477
BstC8I GCNNGC 3 cut(s) 681, 897, 918
BstDEI CTNAG 5 cut(s) 373, 459, 483, 554, 987
BstENI CCTNNNNNAGG 1 cut(s) 921
BstF5I GGATG 7 cut(s) 153, 349, 520, 658, 703, 830, 935
BstH2I RGCGCY 1 cut(s) 680
BstHHI GCGC 1 cut(s) 679
BstKTI GATC 2 cut(s) 755, 1042
BstMAI GTCTC 2 cut(s) 284, 320
BstMBI GATC 2 cut(s) 752, 1039
BstMWI GCNNNNNNNGC 4 cut(s) 32, 589, 676, 764
BstNI CCWGG 2 cut(s) 174, 741
BstPAI GACNNNNGTC 1 cut(s) 726
BstSCI CCNGG 3 cut(s) 172, 739, 1057
BstSFI CTRYAG 1 cut(s) 972
BstSLI GKGCMC 1 cut(s) 844
BstV1I GCAGC 2 cut(s) 745, 919
BstV2I GAAGAC 1 cut(s) 866
BstX2I RGATCY 1 cut(s) 752
BstYI RGATCY 1 cut(s) 752
Bsu36I CCTNAGG 2 cut(s) 459, 483
BsuRI GGCC 1 cut(s) 603
BtsCI GGATG 7 cut(s) 153, 349, 520, 658, 703, 830, 935
BtsI GCAGTG 1 cut(s) 394
BtsIMutI CAGTG 3 cut(s) 394, 844, 1158
Cac8I GCNNGC 3 cut(s) 681, 897, 918
CaiI CAGNNNCTG 1 cut(s) 980
CfoI GCGC 1 cut(s) 679
Cfr13I GGNCC 3 cut(s) 176, 968, 977
CseI GACGC 2 cut(s) 228, 830
CsiI ACCWGGT 1 cut(s) 172
Csp6I GTAC 1 cut(s) 1109
CviJI RGCY 8 cut(s) 206, 329, 443, 494, 553, 583, 603, 895
CviKI_1 RGCY 8 cut(s) 206, 329, 443, 494, 553, 583, 603, 895
CviQI GTAC 1 cut(s) 1109
DdeI CTNAG 5 cut(s) 373, 459, 483, 554, 987
DpnI GATC 2 cut(s) 754, 1041
DpnII GATC 2 cut(s) 752, 1039
DraIII CACNNNGTG 1 cut(s) 185
Eam1104I CTCTTC 3 cut(s) 93, 282, 534
EarI CTCTTC 3 cut(s) 93, 282, 534
Eco24I GRGCYC 1 cut(s) 555
Eco31I GGTCTC 1 cut(s) 320
Eco47I GGWCC 3 cut(s) 176, 968, 977
Eco47III AGCGCT 1 cut(s) 678
Eco72I CACGTG 1 cut(s) 1037
Eco81I CCTNAGG 2 cut(s) 459, 483
EcoNI CCTNNNNNAGG 1 cut(s) 921
EcoO109I RGGNCCY 1 cut(s) 977
EcoRI GAATTC 1 cut(s) 473
EcoRII CCWGG 2 cut(s) 172, 739
EcoT38I GRGCYC 1 cut(s) 555
Esp3I CGTCTC 1 cut(s) 284
FaiI YATR 5 cut(s) 72, 138, 650, 1084, 1102
FaqI GGGAC 2 cut(s) 231, 757
Fnu4HI GCNGC 2 cut(s) 759, 933
FokI GGATG 7 cut(s) 160, 356, 527, 665, 710, 817, 922
FriOI GRGCYC 1 cut(s) 555
Fsp4HI GCNGC 2 cut(s) 759, 933
FspBI CTAG 1 cut(s) 86
GlaI GCGC 1 cut(s) 678
GluI GCNGC 2 cut(s) 759, 933
GsuI CTGGAG 1 cut(s) 483
HaeII RGCGCY 1 cut(s) 680
HaeIII GGCC 1 cut(s) 603
HapII CCGG 1 cut(s) 1059
HgaI GACGC 2 cut(s) 228, 830
HhaI GCGC 1 cut(s) 679
Hin6I GCGC 1 cut(s) 677
HinP1I GCGC 1 cut(s) 677
HincII GTYRAC 1 cut(s) 721
HindII GTYRAC 1 cut(s) 721
HinfI GANTC 3 cut(s) 124, 611, 1065
HpaII CCGG 1 cut(s) 1059
HphI GGTGA 9 cut(s) 248, 344, 410, 418, 827, 868, 1014, 1021, 1136
Hpy166II GTNNAC 3 cut(s) 179, 721, 842
Hpy188I TCNGA 4 cut(s) 262, 616, 904, 988
Hpy188III TCNNGA 8 cut(s) 86, 128, 159, 185, 458, 500, 564, 750
Hpy8I GTNNAC 3 cut(s) 179, 721, 842
Hpy99I CGWCG 4 cut(s) 632, 635, 638, 641
HpyAV CCTTC 6 cut(s) 184, 344, 388, 688, 847, 1151
HpyCH4III ACNGT 2 cut(s) 728, 839
HpyCH4IV ACGT 1 cut(s) 1036
HpyCH4V TGCA 8 cut(s) 7, 65, 620, 701, 842, 920, 935, 1015
HpyF10VI GCNNNNNNNGC 4 cut(s) 32, 589, 676, 764
HpyF3I CTNAG 5 cut(s) 373, 459, 483, 554, 987
HpySE526I ACGT 1 cut(s) 1036
HspAI GCGC 1 cut(s) 677
Kzo9I GATC 2 cut(s) 752, 1039
LmnI GCTCC 3 cut(s) 409, 499, 892
Lsp1109I GCAGC 2 cut(s) 745, 919
LweI GCATC 5 cut(s) 607, 688, 839, 944, 1002
MabI ACCWGGT 1 cut(s) 172
MaeI CTAG 1 cut(s) 86
MaeII ACGT 1 cut(s) 1036
MaeIII GTNAC 2 cut(s) 1020, 1150
MalI GATC 2 cut(s) 754, 1041
MboI GATC 2 cut(s) 752, 1039
MflI RGATCY 1 cut(s) 752
MhlI GDGCHC 3 cut(s) 414, 555, 844
MluCI AATT 5 cut(s) 253, 473, 504, 806, 996
MlyI GAGTC 2 cut(s) 118, 1059
MmeI TCCRAC 1 cut(s) 858
MseI TTAA 6 cut(s) 54, 453, 507, 735, 809, 1047
MspI CCGG 1 cut(s) 1059
MspR9I CCNGG 3 cut(s) 174, 741, 1059
MvaI CCWGG 2 cut(s) 174, 741
MwoI GCNNNNNNNGC 4 cut(s) 32, 589, 676, 764
NciI CCSGG 1 cut(s) 1059
NdeII GATC 2 cut(s) 752, 1039
NlaIV GGNNCC 4 cut(s) 489, 684, 714, 894
NmuCI GTSAC 1 cut(s) 1020
NspV TTCGAA 1 cut(s) 477
PcsI WCGNNNNNNNCGW 2 cut(s) 633, 636
PfeI GAWTC 1 cut(s) 611
PflFI GACNNNGTC 1 cut(s) 312
PflMI CCANNNNNTGG 1 cut(s) 965
PkrI GCNGC 2 cut(s) 760, 934
PleI GAGTC 2 cut(s) 118, 1059
PmaCI CACGTG 1 cut(s) 1037
PmlI CACGTG 1 cut(s) 1037
PpsI GAGTC 2 cut(s) 118, 1059
Ppu21I YACGTR 1 cut(s) 1037
PpuMI RGGWCCY 1 cut(s) 977
PshAI GACNNNNGTC 1 cut(s) 726
PshBI ATTAAT 1 cut(s) 453
Psp5II RGGWCCY 1 cut(s) 977
Psp6I CCWGG 2 cut(s) 172, 739
PspCI CACGTG 1 cut(s) 1037
PspGI CCWGG 2 cut(s) 172, 739
PspN4I GGNNCC 4 cut(s) 489, 684, 714, 894
PspPI GGNCC 3 cut(s) 176, 968, 977
PspPPI RGGWCCY 1 cut(s) 977
PstNI CAGNNNCTG 1 cut(s) 980
PsuI RGATCY 1 cut(s) 752
PsyI GACNNNGTC 1 cut(s) 312
RsaI GTAC 1 cut(s) 1110
RsaNI GTAC 1 cut(s) 1109
SaqAI TTAA 6 cut(s) 54, 453, 507, 735, 809, 1047
SatI GCNGC 2 cut(s) 759, 933
Sau3AI GATC 2 cut(s) 752, 1039
Sau96I GGNCC 3 cut(s) 176, 968, 977
SchI GAGTC 2 cut(s) 118, 1059
ScrFI CCNGG 3 cut(s) 174, 741, 1059
SduI GDGCHC 3 cut(s) 414, 555, 844
SexAI ACCWGGT 1 cut(s) 172
SfaNI GCATC 5 cut(s) 607, 688, 839, 944, 1002
SfcI CTRYAG 1 cut(s) 972
SfuI TTCGAA 1 cut(s) 477
SinI GGWCC 3 cut(s) 176, 968, 977
SmlI CTYRAG 2 cut(s) 126, 672
SmoI CTYRAG 2 cut(s) 126, 672
Sse9I AATT 5 cut(s) 253, 473, 504, 806, 996
SspI AATATT 1 cut(s) 423
SspMI CTAG 1 cut(s) 86
StyD4I CCNGG 3 cut(s) 172, 739, 1057
TaaI ACNGT 2 cut(s) 728, 839
TaiI ACGT 1 cut(s) 1039
TaqI TCGA 2 cut(s) 477, 941
TasI AATT 5 cut(s) 253, 473, 504, 806, 996
TatI WGTACW 1 cut(s) 1108
TfiI GAWTC 1 cut(s) 611
Tru1I TTAA 6 cut(s) 54, 453, 507, 735, 809, 1047
Tru9I TTAA 6 cut(s) 54, 453, 507, 735, 809, 1047
TscAI CASTG 3 cut(s) 394, 844, 1165
TseFI GTSAC 1 cut(s) 1020
TseI GCWGC 2 cut(s) 758, 932
Tsp45I GTSAC 1 cut(s) 1020
TspDTI ATGAA 8 cut(s) 122, 153, 167, 183, 363, 375, 453, 552
TspRI CASTG 3 cut(s) 394, 844, 1165
Tth111I GACNNNGTC 1 cut(s) 312
Van91I CCANNNNNTGG 1 cut(s) 965
VneI GTGCAC 1 cut(s) 840
VpaK11BI GGWCC 3 cut(s) 176, 968, 977
VspI ATTAAT 1 cut(s) 453
XagI CCTNNNNNAGG 1 cut(s) 921
XapI RAATTY 2 cut(s) 253, 473
XbaI TCTAGA 1 cut(s) 85
XspI CTAG 1 cut(s) 86
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.