FvH4_5g39300

Transcription initiation factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb5
OG0013689
Physical Location & Seq
Reverse (-)
29038502 .. 29040000
1499 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_5g39300.t1

Sequence Viewer

Length: 990 bp
ATGTTATCTCTACCTGTGTCTATAAATAGGTGCCAACAAAAGGAAGAGCTACCAAGTACCAACACAAATCATATTGACGTCGACAATAGAGAAATCATCATGTTGTATTGCTTCGAATGCCGCTTCCAAACCGACGTGGTGTTCGACCACTCTACCGGCGACGCAGTGTGCAACAACTGCGGATTAGTGCTCGAGTCCAACTACATCGAGGAGACCAACGAGTGGCGAACCTTCGCCGACGCCGACGACAATTCTCACGACCCTATCCGTGTAGGTGCAGCCACCAACCCGCTGTTGTCCTGTGGCGGACTGTCCACCGTCATGGCCAAACCCAGTGGAAAAGTCCTCCATGCTCCGATTAGGGATCCAGACCAAGGATTGATGATGGCCTTTAAAACCATCGAGACCATGTGTGACAGGTTAGGGCTTGTTTCAACCATCAAGAACCGGGCAAATGAGATGTACAAGACTCTTGAAGATCAAAAGTGTAGCAAGGGAGGAAGAAACCAAGATGCATTATTGGCCGCTTGCCTATACATTGCATGTAAACAAGAAGACAAGCCTAGAACTCTCAAGGAAATCTTTTCCATCGCAAATGGAGCCACAAAGAAAGAGATTGGAAGAGCAAAGGAATACATAATGAAGCAACTCAAGTTATCGGAGAAGACACTACAAGAAGCACAGAGTAACGGGGACTATATGAGGCGATTCTGCTCCGCTCTTGGCCTGAACAATCAAGCAATCAAAGCAGCTCAAGAAGCTGTGCTCAAGTCGCAAGAGTTTGATATAAGGAGGAGTCCTGTATCGATAGCCGCAGCAGTGATTTACATGATCACTCAGCTTTCAGATGATAGTAAAAAGATGCCTCTCAAAGATATCATAGACGTTACAGGAGTAGCACCAGCAACTATCAAAAACTCATACAAAGACCTTAGTCCTCATGTTTCTGAAATAATACCCAACTGGTATTTTCTATATTTGTCAAGCTGA
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

330

Amino Acids

36.72

Weight (kDa)

6.03

Isoelectric Point (pI)

45.41

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Zn_Ribbon_TF PF08271 37 - 78 3e-12 TFIIB zinc-binding
TFIIB PF00382 124 - 208 1.5e-18 Transcription factor TFIIB repeat
TFIIB PF00382 225 - 312 4.1e-11 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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Restriction Enzyme Sites

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Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 81
AccB1I GGYRCC 1 cut(s) 30
AccB7I CCANNNNNTGG 1 cut(s) 222
AccBSI CCGCTC 1 cut(s) 719
AccI GTMKAC 1 cut(s) 81
AciI CCGC 7 cut(s) 121, 180, 290, 306, 525, 717, 813
AclWI GGATC 2 cut(s) 359, 372
AcoI YGGCCR 2 cut(s) 324, 522
AcyI GRCGYC 2 cut(s) 78, 240
AfaI GTAC 2 cut(s) 58, 464
AfiI CCNNNNNNNGG 3 cut(s) 40, 222, 374
AgsI TTSAA 2 cut(s) 435, 476
AjiI CACGTC 1 cut(s) 136
AluBI AGCT 5 cut(s) 49, 752, 761, 841, 987
AluI AGCT 5 cut(s) 49, 752, 761, 841, 987
Alw21I GWGCWC 2 cut(s) 192, 768
Alw26I GTCTC 2 cut(s) 206, 398
AlwI GGATC 2 cut(s) 359, 372
Ama87I CYCGRG 1 cut(s) 191
AoxI GGCC 4 cut(s) 324, 387, 522, 724
ApeKI GCWGC 3 cut(s) 278, 749, 815
ArsI GACNNNNNNTTYG 2 cut(s) 125, 157
AsuC2I CCSGG 1 cut(s) 449
AsuII TTCGAA 1 cut(s) 114
AvaI CYCGRG 1 cut(s) 191
BalI TGGCCA 1 cut(s) 326
BamHI GGATCC 1 cut(s) 364
BanI GGYRCC 1 cut(s) 30
BbsI GAAGAC 2 cut(s) 561, 671
Bbv12I GWGCWC 2 cut(s) 192, 768
BbvI GCAGC 3 cut(s) 290, 761, 827
BccI CCATC 4 cut(s) 379, 407, 446, 596
BclI TGATCA 1 cut(s) 831
BcnI CCSGG 1 cut(s) 449
BcoDI GTCTC 2 cut(s) 206, 398
BfaI CTAG 1 cut(s) 564
BisI GCNGC 6 cut(s) 121, 279, 525, 750, 813, 816
BlsI GCNGC 6 cut(s) 122, 280, 526, 751, 814, 817
Bme1390I CCNGG 1 cut(s) 449
BmeT110I CYCGRG 1 cut(s) 191
BmgBI CACGTC 1 cut(s) 136
BmiI GGNNCC 3 cut(s) 32, 366, 601
BmrFI CCNGG 1 cut(s) 449
BmrI ACTGGG 1 cut(s) 327
BmsI GCATC 2 cut(s) 502, 852
BmuI ACTGGG 1 cut(s) 327
BoxI GACNNNNGTC 1 cut(s) 933
BpiI GAAGAC 2 cut(s) 561, 671
Bpu14I TTCGAA 1 cut(s) 114
BpuEI CTTGAG 4 cut(s) 557, 635, 738, 752
BpuMI CCSGG 1 cut(s) 449
Bsa29I ATCGAT 1 cut(s) 806
BsaHI GRCGYC 2 cut(s) 78, 240
BsaI GGTCTC 2 cut(s) 206, 398
BsaJI CCNNGG 1 cut(s) 373
Bsc4I CCNNNNNNNGG 3 cut(s) 40, 222, 374
Bse118I RCCGGY 1 cut(s) 155
Bse1I ACTGG 2 cut(s) 333, 968
Bse3DI GCAATG 1 cut(s) 537
BseCI ATCGAT 1 cut(s) 806
BseDI CCNNGG 1 cut(s) 373
BseLI CCNNNNNNNGG 3 cut(s) 40, 222, 374
BseMI GCAATG 1 cut(s) 537
BseMII CTCAG 1 cut(s) 851
BseNI ACTGG 2 cut(s) 333, 968
BseRI GAGGAG 2 cut(s) 224, 808
BseXI GCAGC 3 cut(s) 290, 761, 827
BsgI GTGCAG 1 cut(s) 297
BshFI GGCC 4 cut(s) 326, 389, 524, 726
BshNI GGYRCC 1 cut(s) 30
BshVI ATCGAT 1 cut(s) 806
BsiHKAI GWGCWC 2 cut(s) 192, 768
BsiHKCI CYCGRG 1 cut(s) 191
BsiSI CCGG 2 cut(s) 156, 448
BslFI GGGAC 1 cut(s) 707
BslI CCNNNNNNNGG 3 cut(s) 40, 222, 374
BsmAI GTCTC 2 cut(s) 206, 398
BsmFI GGGAC 1 cut(s) 707
BsmI GAATGC 1 cut(s) 122
BsnI GGCC 4 cut(s) 326, 389, 524, 726
Bso31I GGTCTC 2 cut(s) 206, 398
BsoBI CYCGRG 1 cut(s) 191
Bsp119I TTCGAA 1 cut(s) 114
Bsp1286I GDGCHC 2 cut(s) 192, 768
Bsp1407I TGTACA 1 cut(s) 462
Bsp143I GATC 3 cut(s) 364, 478, 831
BspACI CCGC 7 cut(s) 121, 180, 290, 306, 525, 717, 813
BspANI GGCC 4 cut(s) 326, 389, 524, 726
BspCNI CTCAG 1 cut(s) 850
BspDI ATCGAT 1 cut(s) 806
BspLI GGNNCC 3 cut(s) 32, 366, 601
BspPI GGATC 2 cut(s) 359, 372
BspQI GCTCTTC 2 cut(s) 39, 616
BspT104I TTCGAA 1 cut(s) 114
BspT107I GGYRCC 1 cut(s) 30
BspTNI GGTCTC 2 cut(s) 206, 398
BsrBI CCGCTC 1 cut(s) 719
BsrDI GCAATG 1 cut(s) 537
BsrFI RCCGGY 1 cut(s) 155
BsrGI TGTACA 1 cut(s) 462
BsrI ACTGG 2 cut(s) 333, 968
BssAI RCCGGY 1 cut(s) 155
BssECI CCNNGG 1 cut(s) 373
BssMI GATC 3 cut(s) 364, 478, 831
BssNI GRCGYC 2 cut(s) 78, 240
BssT1I CCWWGG 1 cut(s) 373
Bst4CI ACNGT 2 cut(s) 312, 319
Bst6I CTCTTC 2 cut(s) 39, 616
BstACI GRCGYC 2 cut(s) 78, 240
BstAPI GCANNNNNTGC 1 cut(s) 177
BstAUI TGTACA 1 cut(s) 462
BstBI TTCGAA 1 cut(s) 114
BstC8I GCNNGC 1 cut(s) 529
BstDEI CTNAG 2 cut(s) 837, 932
BstKTI GATC 3 cut(s) 367, 481, 834
BstMAI GTCTC 2 cut(s) 206, 398
BstMBI GATC 3 cut(s) 364, 478, 831
BstMWI GCNNNNNNNGC 7 cut(s) 117, 177, 521, 599, 746, 758, 772
BstNSI RCATGY 1 cut(s) 546
BstPAI GACNNNNGTC 1 cut(s) 933
BstSCI CCNGG 1 cut(s) 447
BstV1I GCAGC 3 cut(s) 290, 761, 827
BstV2I GAAGAC 2 cut(s) 561, 671
BstX2I RGATCY 1 cut(s) 364
BstXI CCANNNNNNTGG 1 cut(s) 322
BstYI RGATCY 1 cut(s) 364
Bsu15I ATCGAT 1 cut(s) 806
BsuRI GGCC 4 cut(s) 326, 389, 524, 726
BsuTUI ATCGAT 1 cut(s) 806
BtgZI GCGATG 1 cut(s) 574
BtrI CACGTC 1 cut(s) 136
BtsI GCAGTG 2 cut(s) 171, 825
BtsIMutI CAGTG 3 cut(s) 171, 340, 825
Cac8I GCNNGC 1 cut(s) 529
Cfr10I RCCGGY 1 cut(s) 155
ClaI ATCGAT 1 cut(s) 806
CseI GACGC 2 cut(s) 170, 248
Csp6I GTAC 2 cut(s) 57, 463
CspCI CAANNNNNGTGG 2 cut(s) 316, 351
CviAII CATG 7 cut(s) 100, 322, 350, 409, 543, 829, 941
CviQI GTAC 2 cut(s) 57, 463
DdeI CTNAG 2 cut(s) 837, 932
DpnI GATC 3 cut(s) 366, 480, 833
DpnII GATC 3 cut(s) 364, 478, 831
DraI TTTAAA 1 cut(s) 394
EaeI YGGCCR 2 cut(s) 324, 522
Eam1104I CTCTTC 2 cut(s) 39, 616
EarI CTCTTC 2 cut(s) 39, 616
EciI GGCGGA 1 cut(s) 321
Eco130I CCWWGG 1 cut(s) 373
Eco31I GGTCTC 2 cut(s) 206, 398
Eco32I GATATC 1 cut(s) 877
Eco88I CYCGRG 1 cut(s) 191
EcoRV GATATC 1 cut(s) 877
EcoT14I CCWWGG 1 cut(s) 373
EcoT22I ATGCAT 1 cut(s) 517
ErhI CCWWGG 1 cut(s) 373
FaeI CATG 7 cut(s) 103, 325, 353, 412, 546, 832, 944
FalI AAGNNNNNCTT 2 cut(s) 566, 598
FaqI GGGAC 1 cut(s) 707
FatI CATG 7 cut(s) 99, 321, 349, 408, 542, 828, 940
FauI CCCGC 1 cut(s) 297
FbaI TGATCA 1 cut(s) 831
FblI GTMKAC 1 cut(s) 81
Fnu4HI GCNGC 6 cut(s) 121, 279, 525, 750, 813, 816
Fsp4HI GCNGC 6 cut(s) 121, 279, 525, 750, 813, 816
FspBI CTAG 1 cut(s) 564
GluI GCNGC 6 cut(s) 121, 279, 525, 750, 813, 816
HaeIII GGCC 4 cut(s) 326, 389, 524, 726
HapII CCGG 2 cut(s) 156, 448
HgaI GACGC 2 cut(s) 170, 248
Hin1I GRCGYC 2 cut(s) 78, 240
Hin1II CATG 7 cut(s) 103, 325, 353, 412, 546, 832, 944
HincII GTYRAC 1 cut(s) 82
HindII GTYRAC 1 cut(s) 82
HinfI GANTC 4 cut(s) 194, 469, 708, 796
HpaII CCGG 2 cut(s) 156, 448
Hpy166II GTNNAC 3 cut(s) 82, 315, 548
Hpy188I TCNGA 4 cut(s) 357, 661, 847, 949
Hpy188III TCNNGA 6 cut(s) 257, 368, 403, 442, 473, 755
Hpy8I GTNNAC 3 cut(s) 82, 315, 548
Hpy99I CGWCG 5 cut(s) 83, 137, 164, 242, 248
HpyAV CCTTC 1 cut(s) 241
HpyCH4III ACNGT 2 cut(s) 312, 319
HpyCH4IV ACGT 3 cut(s) 78, 135, 885
HpyCH4V TGCA 4 cut(s) 171, 278, 515, 542
HpyF10VI GCNNNNNNNGC 7 cut(s) 117, 177, 521, 599, 746, 758, 772
HpyF3I CTNAG 2 cut(s) 837, 932
HpySE526I ACGT 3 cut(s) 78, 135, 885
Hsp92I GRCGYC 2 cut(s) 78, 240
Hsp92II CATG 7 cut(s) 103, 325, 353, 412, 546, 832, 944
Ksp22I TGATCA 1 cut(s) 831
Kzo9I GATC 3 cut(s) 364, 478, 831
LguI GCTCTTC 2 cut(s) 39, 616
LmnI GCTCC 3 cut(s) 358, 599, 719
Lsp1109I GCAGC 3 cut(s) 290, 761, 827
LweI GCATC 2 cut(s) 502, 852
MaeI CTAG 1 cut(s) 564
MaeII ACGT 3 cut(s) 78, 135, 885
MaeIII GTNAC 3 cut(s) 413, 686, 886
MalI GATC 3 cut(s) 366, 480, 833
MbiI CCGCTC 1 cut(s) 719
MboI GATC 3 cut(s) 364, 478, 831
MboII GAAGA 6 cut(s) 56, 488, 513, 566, 633, 676
MflI RGATCY 1 cut(s) 364
MhlI GDGCHC 2 cut(s) 192, 768
MlsI TGGCCA 1 cut(s) 326
MluCI AATT 1 cut(s) 250
MluNI TGGCCA 1 cut(s) 326
MlyI GAGTC 3 cut(s) 203, 463, 805
MmeI TCCRAC 1 cut(s) 222
MnlI CCTC 7 cut(s) 202, 356, 491, 696, 786, 876, 948
Mox20I TGGCCA 1 cut(s) 326
Mph1103I ATGCAT 1 cut(s) 517
MscI TGGCCA 1 cut(s) 326
MseI TTAA 1 cut(s) 393
MslI CAYNNNNRTG 1 cut(s) 320
Msp20I TGGCCA 1 cut(s) 326
MspA1I CMGCKG 1 cut(s) 292
MspI CCGG 2 cut(s) 156, 448
MspR9I CCNGG 1 cut(s) 449
Mva1269I GAATGC 1 cut(s) 122
MwoI GCNNNNNNNGC 7 cut(s) 117, 177, 521, 599, 746, 758, 772
NciI CCSGG 1 cut(s) 449
NdeII GATC 3 cut(s) 364, 478, 831
NlaIII CATG 7 cut(s) 103, 325, 353, 412, 546, 832, 944
NlaIV GGNNCC 3 cut(s) 32, 366, 601
NmuCI GTSAC 1 cut(s) 413
NsiI ATGCAT 1 cut(s) 517
NspI RCATGY 1 cut(s) 546
NspV TTCGAA 1 cut(s) 114
PaeR7I CTCGAG 1 cut(s) 191
PciSI GCTCTTC 2 cut(s) 39, 616
PcsI WCGNNNNNNNCGW 2 cut(s) 141, 240
PctI GAATGC 1 cut(s) 122
PfeI GAWTC 1 cut(s) 708
PflMI CCANNNNNTGG 1 cut(s) 222
PkrI GCNGC 6 cut(s) 122, 280, 526, 751, 814, 817
PleI GAGTC 3 cut(s) 202, 463, 804
PpsI GAGTC 3 cut(s) 202, 463, 804
PshAI GACNNNNGTC 1 cut(s) 933
PspN4I GGNNCC 3 cut(s) 32, 366, 601
PspXI VCTCGAGB 1 cut(s) 191
PsuI RGATCY 1 cut(s) 364
RsaI GTAC 2 cut(s) 58, 464
RsaNI GTAC 2 cut(s) 57, 463
RseI CAYNNNNRTG 1 cut(s) 320
SalI GTCGAC 1 cut(s) 80
SapI GCTCTTC 2 cut(s) 39, 616
SaqAI TTAA 1 cut(s) 393
SatI GCNGC 6 cut(s) 121, 279, 525, 750, 813, 816
Sau3AI GATC 3 cut(s) 364, 478, 831
SchI GAGTC 3 cut(s) 203, 463, 805
ScrFI CCNGG 1 cut(s) 449
SduI GDGCHC 2 cut(s) 192, 768
SfaNI GCATC 2 cut(s) 502, 852
Sfr274I CTCGAG 1 cut(s) 191
SfuI TTCGAA 1 cut(s) 114
SlaI CTCGAG 1 cut(s) 191
SmiMI CAYNNNNRTG 1 cut(s) 320
SmlI CTYRAG 5 cut(s) 191, 572, 650, 753, 767
SmoI CTYRAG 5 cut(s) 191, 572, 650, 753, 767
Sse9I AATT 1 cut(s) 250
SsiI CCGC 7 cut(s) 121, 180, 290, 306, 525, 717, 813
SspMI CTAG 1 cut(s) 564
StyD4I CCNGG 1 cut(s) 447
StyI CCWWGG 1 cut(s) 373
TaaI ACNGT 2 cut(s) 312, 319
TaiI ACGT 3 cut(s) 81, 138, 888
TaqI TCGA 7 cut(s) 81, 114, 144, 192, 207, 402, 806
TasI AATT 1 cut(s) 250
TatI WGTACW 1 cut(s) 462
TauI GCSGC 3 cut(s) 123, 527, 815
TfiI GAWTC 1 cut(s) 708
Tru1I TTAA 1 cut(s) 393
Tru9I TTAA 1 cut(s) 393
TscAI CASTG 3 cut(s) 171, 340, 825
TseFI GTSAC 1 cut(s) 413
TseI GCWGC 3 cut(s) 278, 749, 815
Tsp45I GTSAC 1 cut(s) 413
TspDTI ATGAA 1 cut(s) 656
TspGWI ACGGA 1 cut(s) 257
TspRI CASTG 3 cut(s) 171, 340, 825
Van91I CCANNNNNTGG 1 cut(s) 222
XceI RCATGY 1 cut(s) 546
XhoI CTCGAG 1 cut(s) 191
XmiI GTMKAC 1 cut(s) 81
XspI CTAG 1 cut(s) 564
ZraI GACGTC 1 cut(s) 79
Zsp2I ATGCAT 1 cut(s) 517
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.