Rh5DG013300

Transcription initiation factor IIF subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0001724
Physical Location & Seq
Forward (+)
960287 .. 965606
5320 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG013300.1

Sequence Viewer

Length: 1170 bp
ATGTTGCAAGGAAAGGAGTTTTCTGCTATTCCTGCTGGTTCGTGGTTCAACTTTAACAAGGTTGCACAATATAAGCAACTTACTCTAGAGGAAGCAGAAGAGAAGATGAACAATAGGAAAAAGACTCAAGATGGATATGAAAGATGGATGATGAAATCTGGAACTAATGAACCTGGTCCACTTCGTGAGAAGGAAACTGGTGTGGCTGGTGGTAAGGGACGCAAAAAAATGACTGGTGATGATGATGAGGGAAATTTCTCTGATAAAGGGGAGGAAGATGAGGAAGAAGAGACAGCAAGGAAAAATAGACTTGGTCTCAACAAAAAAGGTGGTGATGACGAGGATGATGAAGGTGGAAATGAAGAAGATGACTTAGATGATGATAGCAGTGAGAAGGGTGATGATTGGGAGCACGAAGAAATATTCACCGATGATGATGAAGCTGTTGGTATTAATCCTGAGGAGAGAGAAGAATTCGAACCTGAGGTTCCAGCTCCTCCGGAAATTAAGCAGGATGATGACGATGATGATAATAATGAAGAGGAGGGTGGGCTCAGCAAATCAGGAAAAGAGTTGAAGAAGCTACTTGGGCGAAGTGGTGGCCTGAATGATTCAGATGCAGAGGACGACGACGACGACGATGATGATATGGATGATGATATTGCCTTGCCTCAAGCGCTGGCACCAAAGCAGAAGGATGCACCCAAACAGGAACCAGTTGACAACAGTCCTATTAAACCCGGGACTTCTGGATCTGCTGCTAAAGCAAACCCATCTTCCTCCAAGTCGGCAAAGGGAAAGAGAAAATTAAATGGTGATGACGCTAAAGCATCCAACAGTGCACCTCCCAAGAAGGTGAAGACCGAAAATGAGCAAAAATCAGTCAAAGAGGAGCCTGCTTCTGAAAGTAGTGTGCCTGCAAAAGGTAGTGCTGCATCCTCGAAAACGGGTTCAACACCATCTGGTGGTCCTACAGGTCCCGTATCTGAGGAAGAAATTAGGGCAGTTTTGATGCAAAAGTCACCCATCACCACACGTGATCTTGTTAATAACTTCCCCGGACGACTCAAATCCAAAGAGGAGAAGGATGCTTTTGCAGCAATCCTGAGGAAAATGTCTAGGATACAGAAGAACAACGGGATCAGCTATGTTGTATTGAGGGAAAAGTGA
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

389

Amino Acids

42.43

Weight (kDa)

4.54

Isoelectric Point (pI)

54.97

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TFIIF_alpha PF05793 3 - 387 1e-93 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
AccIII TCCGGA 1 cut(s) 499
AclWI GGATC 2 cut(s) 760, 1148
AcsI RAATTY 2 cut(s) 253, 473
AcvI CACGTG 1 cut(s) 1037
AdeI CACNNNGTG 1 cut(s) 185
AfeI AGCGCT 1 cut(s) 678
AfiI CCNNNNNNNGG 2 cut(s) 923, 965
AflIII ACRYGT 1 cut(s) 1034
AgsI TTSAA 3 cut(s) 49, 577, 954
AjnI CCWGG 1 cut(s) 172
AluBI AGCT 4 cut(s) 443, 494, 583, 1146
AluI AGCT 4 cut(s) 443, 494, 583, 1146
Alw21I GWGCWC 2 cut(s) 414, 844
Alw26I GTCTC 2 cut(s) 284, 320
Alw44I GTGCAC 1 cut(s) 840
AlwI GGATC 2 cut(s) 760, 1148
Ama87I CYCGRG 1 cut(s) 740
Aor13HI TCCGGA 1 cut(s) 499
Aor51HI AGCGCT 1 cut(s) 678
AoxI GGCC 1 cut(s) 601
ApaLI GTGCAC 1 cut(s) 840
ApeKI GCWGC 3 cut(s) 758, 932, 1097
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 3 cut(s) 741, 742, 1059
AsuHPI GGTGA 8 cut(s) 248, 344, 410, 418, 827, 868, 1014, 1021
AsuII TTCGAA 1 cut(s) 477
AvaI CYCGRG 1 cut(s) 740
AvaII GGWCC 3 cut(s) 176, 968, 977
AxyI CCTNAGG 3 cut(s) 459, 483, 1106
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 3 cut(s) 745, 919, 1109
BccI CCATC 5 cut(s) 125, 138, 781, 967, 1034
BciT130I CCWGG 1 cut(s) 174
BciVI GTATCC 1 cut(s) 1116
BcnI CCSGG 3 cut(s) 741, 742, 1059
BcoDI GTCTC 2 cut(s) 284, 320
BfaI CTAG 2 cut(s) 86, 1119
BfmI CTRYAG 1 cut(s) 972
BfoI RGCGCY 1 cut(s) 680
BfuI GTATCC 1 cut(s) 1116
BisI GCNGC 3 cut(s) 759, 933, 1098
BlpI GCTNAGC 1 cut(s) 554
BlsI GCNGC 3 cut(s) 760, 934, 1099
Bme1390I CCNGG 4 cut(s) 174, 741, 742, 1059
Bme18I GGWCC 3 cut(s) 176, 968, 977
BmeT110I CYCGRG 1 cut(s) 740
BmgT120I GGNCC 3 cut(s) 176, 968, 977
BmiI GGNNCC 5 cut(s) 489, 684, 714, 894, 979
BmrFI CCNGG 4 cut(s) 174, 741, 742, 1059
BmsI GCATC 6 cut(s) 607, 688, 839, 944, 1002, 1078
BoxI GACNNNNGTC 1 cut(s) 726
BpiI GAAGAC 1 cut(s) 866
Bpu1102I GCTNAGC 1 cut(s) 554
Bpu14I TTCGAA 1 cut(s) 477
BpuEI CTTGAG 2 cut(s) 111, 657
BpuMI CCSGG 3 cut(s) 741, 742, 1059
BsaAI YACGTR 1 cut(s) 1037
BsaI GGTCTC 1 cut(s) 320
BsaJI CCNNGG 2 cut(s) 740, 1057
BsaWI WCCGGW 1 cut(s) 499
Bsc4I CCNNNNNNNGG 2 cut(s) 923, 965
Bse1I ACTGG 3 cut(s) 202, 238, 716
Bse21I CCTNAGG 3 cut(s) 459, 483, 1106
BseAI TCCGGA 1 cut(s) 499
BseBI CCWGG 1 cut(s) 174
BseDI CCNNGG 2 cut(s) 740, 1057
BseGI GGATG 8 cut(s) 153, 349, 520, 658, 703, 830, 935, 1093
BseLI CCNNNNNNNGG 2 cut(s) 923, 965
BseMII CTCAG 5 cut(s) 450, 474, 568, 978, 1097
BseNI ACTGG 3 cut(s) 202, 238, 716
BseRI GAGGAG 5 cut(s) 476, 486, 557, 905, 1094
BseSI GKGCMC 1 cut(s) 844
BseXI GCAGC 3 cut(s) 745, 919, 1109
BshFI GGCC 1 cut(s) 603
BshNI GGYRCC 1 cut(s) 682
BsiHKAI GWGCWC 2 cut(s) 414, 844
BsiHKCI CYCGRG 1 cut(s) 740
BsiSI CCGG 3 cut(s) 500, 741, 1059
BslFI GGGAC 3 cut(s) 231, 757, 963
BslI CCNNNNNNNGG 2 cut(s) 923, 965
BsmAI GTCTC 2 cut(s) 284, 320
BsmFI GGGAC 3 cut(s) 231, 757, 963
BsnI GGCC 1 cut(s) 603
Bso31I GGTCTC 1 cut(s) 320
BsoBI CYCGRG 1 cut(s) 740
Bsp119I TTCGAA 1 cut(s) 477
Bsp1286I GDGCHC 3 cut(s) 414, 555, 844
Bsp13I TCCGGA 1 cut(s) 499
Bsp143I GATC 3 cut(s) 752, 1039, 1140
Bsp1720I GCTNAGC 1 cut(s) 554
BspANI GGCC 1 cut(s) 603
BspCNI CTCAG 5 cut(s) 451, 475, 567, 979, 1098
BspEI TCCGGA 1 cut(s) 499
BspLI GGNNCC 5 cut(s) 489, 684, 714, 894, 979
BspPI GGATC 2 cut(s) 760, 1148
BspT104I TTCGAA 1 cut(s) 477
BspT107I GGYRCC 1 cut(s) 682
BspTNI GGTCTC 1 cut(s) 320
BsrI ACTGG 3 cut(s) 202, 238, 716
BssECI CCNNGG 2 cut(s) 740, 1057
BssMI GATC 3 cut(s) 752, 1039, 1140
Bst2UI CCWGG 1 cut(s) 174
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 6 cut(s) 373, 459, 483, 554, 987, 1106
BstENI CCTNNNNNAGG 1 cut(s) 921
BstF5I GGATG 8 cut(s) 153, 349, 520, 658, 703, 830, 935, 1093
BstH2I RGCGCY 1 cut(s) 680
BstHHI GCGC 1 cut(s) 679
BstKTI GATC 3 cut(s) 755, 1042, 1143
BstMAI GTCTC 2 cut(s) 284, 320
BstMBI GATC 3 cut(s) 752, 1039, 1140
BstMWI GCNNNNNNNGC 5 cut(s) 32, 589, 676, 764, 1097
BstNI CCWGG 1 cut(s) 174
BstPAI GACNNNNGTC 1 cut(s) 726
BstSCI CCNGG 4 cut(s) 172, 739, 740, 1057
BstSFI CTRYAG 1 cut(s) 972
BstSLI GKGCMC 1 cut(s) 844
BstV1I GCAGC 3 cut(s) 745, 919, 1109
BstV2I GAAGAC 1 cut(s) 866
BstX2I RGATCY 1 cut(s) 752
BstYI RGATCY 1 cut(s) 752
Bsu36I CCTNAGG 3 cut(s) 459, 483, 1106
BsuI GTATCC 1 cut(s) 1116
BsuRI GGCC 1 cut(s) 603
BtsCI GGATG 8 cut(s) 153, 349, 520, 658, 703, 830, 935, 1093
BtsI GCAGTG 1 cut(s) 394
BtsIMutI CAGTG 2 cut(s) 394, 844
Cac8I GCNNGC 3 cut(s) 681, 897, 918
CfoI GCGC 1 cut(s) 679
Cfr13I GGNCC 3 cut(s) 176, 968, 977
Cfr9I CCCGGG 1 cut(s) 740
CseI GACGC 2 cut(s) 228, 830
CsiI ACCWGGT 1 cut(s) 172
CspCI CAANNNNNGTGG 2 cut(s) 310, 345
CviJI RGCY 8 cut(s) 206, 443, 494, 553, 583, 603, 895, 1146
CviKI_1 RGCY 8 cut(s) 206, 443, 494, 553, 583, 603, 895, 1146
DdeI CTNAG 6 cut(s) 373, 459, 483, 554, 987, 1106
DpnI GATC 3 cut(s) 754, 1041, 1142
DpnII GATC 3 cut(s) 752, 1039, 1140
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 3 cut(s) 459, 483, 1106
Eco88I CYCGRG 1 cut(s) 740
EcoNI CCTNNNNNAGG 1 cut(s) 921
EcoO109I RGGNCCY 1 cut(s) 977
EcoRI GAATTC 1 cut(s) 473
EcoRII CCWGG 1 cut(s) 172
EcoT38I GRGCYC 1 cut(s) 555
FaiI YATR 4 cut(s) 72, 138, 650, 1149
FaqI GGGAC 3 cut(s) 231, 757, 963
Fnu4HI GCNGC 3 cut(s) 759, 933, 1098
FokI GGATG 8 cut(s) 160, 356, 527, 665, 710, 817, 922, 1100
FriOI GRGCYC 1 cut(s) 555
Fsp4HI GCNGC 3 cut(s) 759, 933, 1098
FspBI CTAG 2 cut(s) 86, 1119
GlaI GCGC 1 cut(s) 678
GluI GCNGC 3 cut(s) 759, 933, 1098
HaeII RGCGCY 1 cut(s) 680
HaeIII GGCC 1 cut(s) 603
HapII CCGG 3 cut(s) 500, 741, 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 3 cut(s) 500, 741, 1059
HphI GGTGA 8 cut(s) 248, 344, 410, 418, 827, 868, 1014, 1021
Hpy166II GTNNAC 3 cut(s) 179, 721, 842
Hpy188I TCNGA 4 cut(s) 262, 616, 904, 988
Hpy188III TCNNGA 9 cut(s) 86, 128, 159, 185, 458, 500, 564, 750, 1105
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, 1078
HpyCH4III ACNGT 2 cut(s) 728, 839
HpyCH4IV ACGT 1 cut(s) 1036
HpyCH4V TGCA 9 cut(s) 7, 65, 620, 701, 842, 920, 935, 1015, 1097
HpyF10VI GCNNNNNNNGC 5 cut(s) 32, 589, 676, 764, 1097
HpyF3I CTNAG 6 cut(s) 373, 459, 483, 554, 987, 1106
HpySE526I ACGT 1 cut(s) 1036
HspAI GCGC 1 cut(s) 677
Kpn2I TCCGGA 1 cut(s) 499
Kzo9I GATC 3 cut(s) 752, 1039, 1140
LmnI GCTCC 3 cut(s) 409, 499, 892
Lsp1109I GCAGC 3 cut(s) 745, 919, 1109
LweI GCATC 6 cut(s) 607, 688, 839, 944, 1002, 1078
MabI ACCWGGT 1 cut(s) 172
MaeI CTAG 2 cut(s) 86, 1119
MaeII ACGT 1 cut(s) 1036
MaeIII GTNAC 1 cut(s) 1020
MalI GATC 3 cut(s) 754, 1041, 1142
MboI GATC 3 cut(s) 752, 1039, 1140
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
MroI TCCGGA 1 cut(s) 499
MseI TTAA 6 cut(s) 54, 453, 507, 735, 809, 1047
MspI CCGG 3 cut(s) 500, 741, 1059
MspR9I CCNGG 4 cut(s) 174, 741, 742, 1059
MvaI CCWGG 1 cut(s) 174
MwoI GCNNNNNNNGC 5 cut(s) 32, 589, 676, 764, 1097
NciI CCSGG 3 cut(s) 741, 742, 1059
NdeII GATC 3 cut(s) 752, 1039, 1140
NlaIV GGNNCC 5 cut(s) 489, 684, 714, 894, 979
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 3 cut(s) 760, 934, 1099
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 1 cut(s) 172
PspCI CACGTG 1 cut(s) 1037
PspGI CCWGG 1 cut(s) 172
PspN4I GGNNCC 5 cut(s) 489, 684, 714, 894, 979
PspPI GGNCC 3 cut(s) 176, 968, 977
PspPPI RGGWCCY 1 cut(s) 977
PsuI RGATCY 1 cut(s) 752
PsyI GACNNNGTC 1 cut(s) 312
SaqAI TTAA 6 cut(s) 54, 453, 507, 735, 809, 1047
SatI GCNGC 3 cut(s) 759, 933, 1098
Sau3AI GATC 3 cut(s) 752, 1039, 1140
Sau96I GGNCC 3 cut(s) 176, 968, 977
SchI GAGTC 2 cut(s) 118, 1059
ScrFI CCNGG 4 cut(s) 174, 741, 742, 1059
SduI GDGCHC 3 cut(s) 414, 555, 844
SexAI ACCWGGT 1 cut(s) 172
SfaNI GCATC 6 cut(s) 607, 688, 839, 944, 1002, 1078
SfcI CTRYAG 1 cut(s) 972
SfuI TTCGAA 1 cut(s) 477
SinI GGWCC 3 cut(s) 176, 968, 977
SmaI CCCGGG 1 cut(s) 742
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 2 cut(s) 86, 1119
StyD4I CCNGG 4 cut(s) 172, 739, 740, 1057
TaaI ACNGT 2 cut(s) 728, 839
TaiI ACGT 1 cut(s) 1039
TaqI TCGA 2 cut(s) 477, 941
TaqII GACCGA 1 cut(s) 878
TasI AATT 5 cut(s) 253, 473, 504, 806, 996
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 2 cut(s) 394, 844
TseFI GTSAC 1 cut(s) 1020
TseI GCWGC 3 cut(s) 758, 932, 1097
Tsp45I GTSAC 1 cut(s) 1020
TspDTI ATGAA 8 cut(s) 122, 153, 167, 183, 363, 375, 453, 552
TspMI CCCGGG 1 cut(s) 740
TspRI CASTG 2 cut(s) 394, 844
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
XmaI CCCGGG 1 cut(s) 740
XspI CTAG 2 cut(s) 86, 1119
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.