FvH4_6g24330

Transcription initiation factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb6
OG0014000
Physical Location & Seq
Forward (+)
18419595 .. 18424513
4919 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_6g24330.t1

Sequence Viewer

Length: 939 bp
ATGTCCGATGCGTATTGCTCCGACTGCAAGCGCCAGACGGAGGTGGTGTTCGATCACTCCGCCGGCGACACCGTGTGCTCCGAGTGCGGCTTAGTCCTCGAGTCCCATTCCATCGACGAGACCTCGGAGTGGCGAACCTTCGCCAACGAATCCGGCGATAACGACCCCGTCCGTGTCGGTGGCCCCACCAACCCGCTCTTGGCCGACGGCGGCTTGTCCACCGTCATCGCCAAGCCCAATGGAGCTTCCGGCGAGTTTCTGTCTTCGTCTTTGGGTAGGTGGCAGAACCGCGGCTCCAATCCCGATCGGGGCTTAATACTCGCCTTCAAAACCATCGCCACCATGTCCGATAGGTTGGGCCTTGTTGCAACCATCAAGGATCGAGCTAATGAGATATATAAGAGGGTGGAAGATCAGAAGTCTAGTAGAGGAAGAAATCAGGATGCGTTATTGGCTGCTTGCCTATACATTGCTTGTCGACAAGAAGACAAACCCCGCACTGTAAAGGAAATTTGCTCCGTTGCCAATGGAGCCACAAAGAAAGAAATTGGGCGAGCAAAAGAATACATAGTGAAACAGCTGGGATTGGAGAAGGGTCAGTCAGTGGAGATGGGAACAATACATGCTGGGGACTTTATGAGGCGTTTCTGTTCCAACCTTGGTATGAATAATCAAGCGGTCAAAGCTGCTCAAGAAGCTGTTCAGAAGTCTGAAGAATTCGATATAAGGAGGAGCCCTATATCAATAGCAGCAGCAGTTATATATATTATAACTCAACTTTCAGATGATAAGAAGCCTCTGAAAGATATCTCACTTGCTACTGGAGTAGCAGAAGGAACTATCAGAAACTCATACAAGGACCTTTATCCTCATGTATCTAAGATAATACCCAACTGGTATGCCAAGGAGGAGGATCTGAAAAACCTTTGCAGCCCTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464
KEGG Pathways
Metabolic & Signaling
ko03022 ko05169 ko05203 map03022 map05169 map05203
Pfam Domains
Protein Families
TFIIB TF_Zn_Ribbon

Protein Analysis

313

Amino Acids

34.17

Weight (kDa)

6.47

Isoelectric Point (pI)

40.16

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Zn_Ribbon_TF PF08271 5 - 47 1.9e-15 TFIIB zinc-binding
TFIIB PF00382 103 - 185 9.3e-21 Transcription factor TFIIB repeat
TFIIB PF00382 204 - 290 6.5e-14 Transcription factor TFIIB repeat
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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Orthologous Genes (Group: OG0014000)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G10330
fragaria_vesca FvH4_6g24330
malus_domestica MD12G1075300.v1.1 MD14G1073800.v1.1
prunus_persica Prupe.7G055400_v2.0.a1
pyrus_communis pycom12g06480 pycom14g06300
rosa_chinensis RchiOBHm_Chr3g0483261
rosa_laevigata RLG00000023294
rosa_multiflora Rmu_sc0007550.1_g000009
rosa_roxburghii Rroxscaffold_6G00398520
rosa_rugosa Rorug03G0205000
rosa_samantha Rh3AG253400 Rh3BG290500 Rh3CG287300 Rh3DG283100
rosa_wichuraiana Rw3G022920

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 770
AccBSI CCGCTC 1 cut(s) 196
AccI GTMKAC 1 cut(s) 478
AccII CGCG 1 cut(s) 291
AciI CCGC 8 cut(s) 60, 87, 194, 210, 289, 291, 496, 677
AclWI GGATC 2 cut(s) 387, 921
AcoI YGGCCR 1 cut(s) 201
AcsI RAATTY 2 cut(s) 510, 716
AcuI CTGAAG 1 cut(s) 732
AdeI CACNNNGTG 1 cut(s) 75
AfiI CCNNNNNNNGG 4 cut(s) 40, 129, 199, 308
AgsI TTSAA 1 cut(s) 328
AloI GAACNNNNNNTCC 4 cut(s) 32, 64, 278, 310
AluBI AGCT 5 cut(s) 245, 386, 580, 686, 698
AluI AGCT 5 cut(s) 245, 386, 580, 686, 698
Alw21I GWGCWC 1 cut(s) 80
Alw26I GTCTC 1 cut(s) 113
AlwI GGATC 2 cut(s) 387, 921
Ama87I CYCGRG 1 cut(s) 98
AoxI GGCC 3 cut(s) 181, 201, 358
ApeKI GCWGC 5 cut(s) 455, 686, 749, 752, 930
ApoI RAATTY 2 cut(s) 510, 716
Asp700I GAANNNNTTC 1 cut(s) 699
AspLEI GCGC 1 cut(s) 33
AspS9I GGNCC 3 cut(s) 182, 358, 859
AvaI CYCGRG 1 cut(s) 98
AvaII GGWCC 1 cut(s) 859
BanII GRGCYC 1 cut(s) 737
BbsI GAAGAC 2 cut(s) 255, 492
Bbv12I GWGCWC 1 cut(s) 80
BbvI GCAGC 4 cut(s) 442, 673, 761, 764
BccI CCATC 4 cut(s) 119, 341, 380, 604
BceAI ACGGC 1 cut(s) 223
BcoDI GTCTC 1 cut(s) 113
BfaI CTAG 1 cut(s) 423
BfoI RGCGCY 1 cut(s) 34
BisI GCNGC 8 cut(s) 88, 211, 292, 456, 687, 750, 753, 931
BlsI GCNGC 8 cut(s) 89, 212, 293, 457, 688, 751, 754, 932
Bme18I GGWCC 1 cut(s) 859
BmeT110I CYCGRG 1 cut(s) 98
BmgT120I GGNCC 3 cut(s) 182, 358, 859
BmiI GGNNCC 4 cut(s) 184, 295, 532, 734
BmsI GCATC 1 cut(s) 433
BpiI GAAGAC 2 cut(s) 255, 492
BpmI CTGGAG 1 cut(s) 843
BpuEI CTTGAG 1 cut(s) 675
BsaI GGTCTC 1 cut(s) 113
BsaJI CCNNGG 4 cut(s) 123, 289, 658, 903
BsaXI ACNNNNNCTCC 4 cut(s) 32, 62, 278, 308
Bsc4I CCNNNNNNNGG 4 cut(s) 40, 129, 199, 308
Bse118I RCCGGY 1 cut(s) 62
Bse1I ACTGG 2 cut(s) 826, 899
Bse3DI GCAATG 1 cut(s) 468
BseDI CCNNGG 4 cut(s) 123, 289, 658, 903
BseGI GGATG 1 cut(s) 448
BseLI CCNNNNNNNGG 4 cut(s) 40, 129, 199, 308
BseMI GCAATG 1 cut(s) 468
BseNI ACTGG 2 cut(s) 826, 899
BseRI GAGGAG 2 cut(s) 745, 923
BseXI GCAGC 4 cut(s) 442, 673, 761, 764
BseYI CCCAGC 2 cut(s) 580, 626
Bsh1236I CGCG 1 cut(s) 291
Bsh1285I CGRYCG 1 cut(s) 307
BshFI GGCC 3 cut(s) 183, 203, 360
BsiEI CGRYCG 1 cut(s) 307
BsiHKAI GWGCWC 1 cut(s) 80
BsiHKCI CYCGRG 1 cut(s) 98
BsiSI CCGG 3 cut(s) 63, 153, 249
BslFI GGGAC 2 cut(s) 88, 644
BslI CCNNNNNNNGG 4 cut(s) 40, 129, 199, 308
BsmAI GTCTC 1 cut(s) 113
BsmFI GGGAC 2 cut(s) 88, 644
BsnI GGCC 3 cut(s) 183, 203, 360
Bso31I GGTCTC 1 cut(s) 113
BsoBI CYCGRG 1 cut(s) 98
Bsp1286I GDGCHC 2 cut(s) 80, 737
Bsp143I GATC 5 cut(s) 52, 304, 379, 412, 913
BspACI CCGC 8 cut(s) 60, 87, 194, 210, 289, 291, 496, 677
BspANI GGCC 3 cut(s) 183, 203, 360
BspFNI CGCG 1 cut(s) 291
BspLI GGNNCC 4 cut(s) 184, 295, 532, 734
BspPI GGATC 2 cut(s) 387, 921
BspTNI GGTCTC 1 cut(s) 113
BsrBI CCGCTC 1 cut(s) 196
BsrDI GCAATG 1 cut(s) 468
BsrFI RCCGGY 1 cut(s) 62
BsrI ACTGG 2 cut(s) 826, 899
BssAI RCCGGY 1 cut(s) 62
BssECI CCNNGG 4 cut(s) 123, 289, 658, 903
BssMI GATC 5 cut(s) 52, 304, 379, 412, 913
BssT1I CCWWGG 2 cut(s) 658, 903
Bst4CI ACNGT 3 cut(s) 73, 223, 502
BstC8I GCNNGC 4 cut(s) 29, 64, 460, 555
BstDEI CTNAG 2 cut(s) 91, 879
BstDSI CCRYGG 1 cut(s) 289
BstF5I GGATG 1 cut(s) 448
BstFNI CGCG 1 cut(s) 291
BstH2I RGCGCY 1 cut(s) 34
BstHHI GCGC 1 cut(s) 33
BstKTI GATC 5 cut(s) 55, 307, 382, 415, 916
BstMAI GTCTC 1 cut(s) 113
BstMBI GATC 5 cut(s) 52, 304, 379, 412, 913
BstMCI CGRYCG 1 cut(s) 307
BstMWI GCNNNNNNNGC 6 cut(s) 24, 84, 452, 530, 683, 695
BstNSI RCATGY 1 cut(s) 626
BstUI CGCG 1 cut(s) 291
BstV1I GCAGC 4 cut(s) 442, 673, 761, 764
BstV2I GAAGAC 2 cut(s) 255, 492
BstX2I RGATCY 1 cut(s) 913
BstYI RGATCY 1 cut(s) 913
BsuRI GGCC 3 cut(s) 183, 203, 360
BtgI CCRYGG 1 cut(s) 289
BtgZI GCGATG 2 cut(s) 211, 319
BtsCI GGATG 1 cut(s) 448
BtsIMutI CAGTG 2 cut(s) 498, 609
Cac8I GCNNGC 4 cut(s) 29, 64, 460, 555
CfoI GCGC 1 cut(s) 33
Cfr10I RCCGGY 1 cut(s) 62
Cfr13I GGNCC 3 cut(s) 182, 358, 859
Cfr42I CCGCGG 1 cut(s) 292
CviAII CATG 3 cut(s) 343, 623, 872
DdeI CTNAG 2 cut(s) 91, 879
DpnI GATC 5 cut(s) 54, 306, 381, 414, 915
DpnII GATC 5 cut(s) 52, 304, 379, 412, 913
DraIII CACNNNGTG 1 cut(s) 75
EaeI YGGCCR 1 cut(s) 201
EciI GGCGGA 1 cut(s) 49
Eco130I CCWWGG 2 cut(s) 658, 903
Eco24I GRGCYC 1 cut(s) 737
Eco31I GGTCTC 1 cut(s) 113
Eco32I GATATC 1 cut(s) 808
Eco47I GGWCC 1 cut(s) 859
Eco57I CTGAAG 1 cut(s) 732
Eco88I CYCGRG 1 cut(s) 98
EcoO109I RGGNCCY 1 cut(s) 859
EcoRI GAATTC 1 cut(s) 716
EcoRV GATATC 1 cut(s) 808
EcoT14I CCWWGG 2 cut(s) 658, 903
EcoT38I GRGCYC 1 cut(s) 737
ErhI CCWWGG 2 cut(s) 658, 903
FaeI CATG 3 cut(s) 346, 626, 875
FaqI GGGAC 2 cut(s) 88, 644
FatI CATG 3 cut(s) 342, 622, 871
FauI CCCGC 2 cut(s) 201, 503
FblI GTMKAC 1 cut(s) 478
Fnu4HI GCNGC 8 cut(s) 88, 211, 292, 456, 687, 750, 753, 931
FokI GGATG 1 cut(s) 455
FriOI GRGCYC 1 cut(s) 737
Fsp4HI GCNGC 8 cut(s) 88, 211, 292, 456, 687, 750, 753, 931
FspBI CTAG 1 cut(s) 423
GlaI GCGC 1 cut(s) 32
GluI GCNGC 8 cut(s) 88, 211, 292, 456, 687, 750, 753, 931
GsaI CCCAGC 2 cut(s) 584, 630
GsuI CTGGAG 1 cut(s) 843
HaeII RGCGCY 1 cut(s) 34
HaeIII GGCC 3 cut(s) 183, 203, 360
HapII CCGG 3 cut(s) 63, 153, 249
HhaI GCGC 1 cut(s) 33
Hin1II CATG 3 cut(s) 346, 626, 875
Hin6I GCGC 1 cut(s) 31
HinP1I GCGC 1 cut(s) 31
HincII GTYRAC 1 cut(s) 479
HindII GTYRAC 1 cut(s) 479
HinfI GANTC 2 cut(s) 101, 149
HpaII CCGG 3 cut(s) 63, 153, 249
Hpy166II GTNNAC 2 cut(s) 219, 479
Hpy188III TCNNGA 3 cut(s) 302, 440, 692
Hpy8I GTNNAC 2 cut(s) 219, 479
Hpy99I CGWCG 2 cut(s) 119, 209
HpyAV CCTTC 4 cut(s) 148, 334, 586, 827
HpyCH4III ACNGT 3 cut(s) 73, 223, 502
HpyCH4V TGCA 3 cut(s) 27, 368, 930
HpyF10VI GCNNNNNNNGC 6 cut(s) 24, 84, 452, 530, 683, 695
HpyF3I CTNAG 2 cut(s) 91, 879
Hsp92II CATG 3 cut(s) 346, 626, 875
HspAI GCGC 1 cut(s) 31
KroI GCCGGC 1 cut(s) 62
KroNI GCCGGC 1 cut(s) 64
KspI CCGCGG 1 cut(s) 292
Kzo9I GATC 5 cut(s) 52, 304, 379, 412, 913
LmnI GCTCC 7 cut(s) 23, 83, 242, 299, 521, 530, 732
LpnPI CCDG 9 cut(s) 47, 76, 166, 262, 425, 566, 612, 807, 880
Lsp1109I GCAGC 4 cut(s) 442, 673, 761, 764
LweI GCATC 1 cut(s) 433
MaeI CTAG 1 cut(s) 423
MalI GATC 5 cut(s) 54, 306, 381, 414, 915
MbiI CCGCTC 1 cut(s) 196
MboI GATC 5 cut(s) 52, 304, 379, 412, 913
MboII GAAGA 5 cut(s) 255, 422, 444, 497, 725
MflI RGATCY 1 cut(s) 913
MhlI GDGCHC 2 cut(s) 80, 737
MluCI AATT 3 cut(s) 510, 546, 716
MlyI GAGTC 1 cut(s) 110
MmeI TCCRAC 2 cut(s) 45, 678
MreI CGCCGGCG 1 cut(s) 62
MroNI GCCGGC 1 cut(s) 62
MroXI GAANNNNTTC 1 cut(s) 699
MseI TTAA 1 cut(s) 314
MspA1I CMGCKG 2 cut(s) 291, 580
MspI CCGG 3 cut(s) 63, 153, 249
MvnI CGCG 1 cut(s) 291
MwoI GCNNNNNNNGC 6 cut(s) 24, 84, 452, 530, 683, 695
NaeI GCCGGC 1 cut(s) 64
NdeII GATC 5 cut(s) 52, 304, 379, 412, 913
NgoMIV GCCGGC 1 cut(s) 62
NlaIII CATG 3 cut(s) 346, 626, 875
NlaIV GGNNCC 4 cut(s) 184, 295, 532, 734
NspI RCATGY 1 cut(s) 626
PaeR7I CTCGAG 1 cut(s) 98
PcsI WCGNNNNNNNCGW 1 cut(s) 153
PdiI GCCGGC 1 cut(s) 64
PdmI GAANNNNTTC 1 cut(s) 699
PfeI GAWTC 1 cut(s) 149
PflFI GACNNNGTC 1 cut(s) 167
PkrI GCNGC 8 cut(s) 89, 212, 293, 457, 688, 751, 754, 932
Ple19I CGATCG 1 cut(s) 307
PleI GAGTC 1 cut(s) 109
PpsI GAGTC 1 cut(s) 109
PpuMI RGGWCCY 1 cut(s) 859
PsiI TTATAA 1 cut(s) 770
Psp5II RGGWCCY 1 cut(s) 859
PspFI CCCAGC 2 cut(s) 580, 626
PspN4I GGNNCC 4 cut(s) 184, 295, 532, 734
PspPI GGNCC 3 cut(s) 182, 358, 859
PspPPI RGGWCCY 1 cut(s) 859
PspXI VCTCGAGB 1 cut(s) 98
PsuI RGATCY 1 cut(s) 913
PsyI GACNNNGTC 1 cut(s) 167
PvuI CGATCG 1 cut(s) 307
PvuII CAGCTG 1 cut(s) 580
SacII CCGCGG 1 cut(s) 292
SalI GTCGAC 1 cut(s) 477
SaqAI TTAA 1 cut(s) 314
SatI GCNGC 8 cut(s) 88, 211, 292, 456, 687, 750, 753, 931
Sau3AI GATC 5 cut(s) 52, 304, 379, 412, 913
Sau96I GGNCC 3 cut(s) 182, 358, 859
SchI GAGTC 1 cut(s) 110
SduI GDGCHC 2 cut(s) 80, 737
SfaNI GCATC 1 cut(s) 433
Sfr274I CTCGAG 1 cut(s) 98
Sfr303I CCGCGG 1 cut(s) 292
SgrAI CRCCGGYG 1 cut(s) 62
SgrBI CCGCGG 1 cut(s) 292
SinI GGWCC 1 cut(s) 859
SlaI CTCGAG 1 cut(s) 98
SmlI CTYRAG 2 cut(s) 98, 690
SmoI CTYRAG 2 cut(s) 98, 690
Sse9I AATT 3 cut(s) 510, 546, 716
SsiI CCGC 8 cut(s) 60, 87, 194, 210, 289, 291, 496, 677
SspMI CTAG 1 cut(s) 423
StyI CCWWGG 2 cut(s) 658, 903
TaaI ACNGT 3 cut(s) 73, 223, 502
TaqI TCGA 6 cut(s) 51, 99, 114, 382, 478, 720
TasI AATT 3 cut(s) 510, 546, 716
TauI GCSGC 3 cut(s) 90, 213, 294
TfiI GAWTC 1 cut(s) 149
Tru1I TTAA 1 cut(s) 314
Tru9I TTAA 1 cut(s) 314
TscAI CASTG 2 cut(s) 505, 609
TseI GCWGC 5 cut(s) 455, 686, 749, 752, 930
TspDTI ATGAA 1 cut(s) 680
TspGWI ACGGA 3 cut(s) 53, 161, 508
TspRI CASTG 2 cut(s) 505, 609
Tth111I GACNNNGTC 1 cut(s) 167
VpaK11BI GGWCC 1 cut(s) 859
XapI RAATTY 2 cut(s) 510, 716
XceI RCATGY 1 cut(s) 626
XcmI CCANNNNNNNNNTGG 1 cut(s) 196
XhoI CTCGAG 1 cut(s) 98
XmiI GTMKAC 1 cut(s) 478
XmnI GAANNNNTTC 1 cut(s) 699
XspI CTAG 1 cut(s) 423
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.