FvH4_6g38311

Transcription factor that specifically binds AT-rich DNA sequences related to the nuclear matrix attachment regions (MARs)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb6
OG0014578
Physical Location & Seq
Reverse (-)
30288796 .. 30289598
803 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_6g38311.t1

Sequence Viewer

Length: 801 bp
ATGGCAGGAGGTGCAGATCTTACAGGACCTAATGTTGTGTCTAAAATTTCCATCGACCGAACCCAAGATGCAGATAAAGGTAATAATCACCACAGGCCTAGCATTGATGCATTACTTATGGCACCAAAAATACCAAAGCCAGTGCAACCAGTTTCTTCAGCATCTGAGGGGGAGACAATCAGGCGACCCCGTGGCAGGCCAGCGGGTTCTAAAAACAAGCCAAAGCCGCCTATCATTGTCACCCGCGACAGTGCTAATGCACTTCGTGCACATGCTATGGAAGTGAGTTCAGGCTGTGATGTGAGTGAAAGTTTAACCAACTTTGCAAGAAGGAAACAAAGAGGCATTTGCATACTGAGTGGAAGTGGTTGTGTAACCAATGTCACACTGCGACAACCAGCTTCCTCCGGAGCCATTGTGACCCTCCATGGCCGTTTTGAGATTCTGTCATTGCTCGGATCAATCTTGCCTCCTCCTGCCCCTCCTGGGATTACAGGTCTAACCATCTACTTGGCTGGGGCTCAGGGGCAGGTTGTAGGTGGGGGCGTGGTAGGTGCACTTATTGCTTCAGGGCCTGTTGTGATCATGGCTGCCTCGTTCATGAATGCAACATTTGATCGTCTTCCACTGGATGAAGATGAAGTAGCTGCAGCTTTACAGAACCAACAATACCAAAACGGTCGTCACCACCACCTGGATATGTCAGATTTTTATGGACTTCCACCAAATCTGCTCACTAATGGTAATGTGCCTCCTGAGGTTTACTCCTGGGCATCTGGCCGAAATATGTCAAAGACATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
DUF296

Protein Analysis

267

Amino Acids

27.94

Weight (kDa)

9.27

Isoelectric Point (pI)

40.41

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PCC PF03479 89 - 201 1.6e-24 Plants and Prokaryotes Conserved (PCC) domain
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: OG0014578)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G42940
fragaria_vesca FvH4_6g38311
malus_domestica MD09G1151100.v1.1 MD17G1138700.v1.1
prunus_persica Prupe.3G173700_v2.0.a1
pyrus_communis pycom09g07090 pycom17g13180
rosa_chinensis RchiOBHm_Chr2g0151621
rosa_laevigata RLG00000020564
rosa_multiflora Rmu_sc0005287.1_g000005
rosa_roxburghii Rroxscaffold_2G00096310
rosa_rugosa Rorug02G0427300
rosa_samantha Rh2AG488200 Rh2BG500800 Rh2CG474700 Rh2DG511900
rosa_wichuraiana Rw2G040020

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 520
AccB1I GGYRCC 1 cut(s) 121
AccB7I CCANNNNNTGG 1 cut(s) 694
AccII CGCG 1 cut(s) 246
AccIII TCCGGA 1 cut(s) 407
AciI CCGC 3 cut(s) 203, 227, 244
AclWI GGATC 1 cut(s) 466
AcoI YGGCCR 2 cut(s) 430, 778
AcsI RAATTY 1 cut(s) 45
AcuI CTGAAG 2 cut(s) 141, 552
AdeI CACNNNGTG 1 cut(s) 266
AfiI CCNNNNNNNGG 3 cut(s) 195, 486, 694
AjnI CCWGG 3 cut(s) 484, 693, 767
AluBI AGCT 3 cut(s) 401, 647, 653
AluI AGCT 3 cut(s) 401, 647, 653
Alw21I GWGCWC 2 cut(s) 271, 559
Alw26I GTCTC 1 cut(s) 167
Alw44I GTGCAC 2 cut(s) 267, 555
AlwI GGATC 1 cut(s) 466
AlwNI CAGNNNCTG 2 cut(s) 164, 575
Aor13HI TCCGGA 1 cut(s) 407
AoxI GGCC 5 cut(s) 95, 197, 430, 572, 778
ApaLI GTGCAC 2 cut(s) 267, 555
ApeKI GCWGC 3 cut(s) 590, 647, 650
ApoI RAATTY 1 cut(s) 45
ArsI GACNNNNNNTTYG 2 cut(s) 667, 699
AspS9I GGNCC 2 cut(s) 26, 572
AsuHPI GGTGA 3 cut(s) 80, 232, 677
AvaII GGWCC 1 cut(s) 26
AxyI CCTNAGG 1 cut(s) 756
BaeGI GKGCMC 2 cut(s) 271, 559
BanI GGYRCC 1 cut(s) 121
BanII GRGCYC 1 cut(s) 523
BbsI GAAGAC 1 cut(s) 614
Bbv12I GWGCWC 2 cut(s) 271, 559
BbvI GCAGC 3 cut(s) 577, 634, 662
BccI CCATC 2 cut(s) 59, 512
BceAI ACGGC 1 cut(s) 417
BciT130I CCWGG 3 cut(s) 486, 695, 769
BclI TGATCA 1 cut(s) 582
BcoDI GTCTC 1 cut(s) 167
BfaI CTAG 1 cut(s) 99
BfmI CTRYAG 1 cut(s) 648
BfuAI ACCTGC 1 cut(s) 520
BglII AGATCT 1 cut(s) 16
BisI GCNGC 4 cut(s) 227, 591, 648, 651
BlsI GCNGC 4 cut(s) 228, 592, 649, 652
Bme1390I CCNGG 3 cut(s) 486, 695, 769
Bme18I GGWCC 1 cut(s) 26
BmgT120I GGNCC 2 cut(s) 26, 572
BmiI GGNNCC 2 cut(s) 123, 412
BmrFI CCNGG 3 cut(s) 486, 695, 769
BmsI GCATC 4 cut(s) 58, 97, 170, 782
BpiI GAAGAC 1 cut(s) 614
BplI GAGNNNNNCTC 2 cut(s) 749, 781
Bpu10I CCTNAGC 1 cut(s) 522
BsaJI CCNNGG 4 cut(s) 190, 427, 485, 768
BsaWI WCCGGW 1 cut(s) 407
BsaXI ACNNNNNCTCC 2 cut(s) 402, 432
Bsc4I CCNNNNNNNGG 3 cut(s) 195, 486, 694
Bse1I ACTGG 3 cut(s) 140, 149, 633
Bse21I CCTNAGG 1 cut(s) 756
Bse3DI GCAATG 1 cut(s) 449
BseAI TCCGGA 1 cut(s) 407
BseBI CCWGG 3 cut(s) 486, 695, 769
BseDI CCNNGG 4 cut(s) 190, 427, 485, 768
BseGI GGATG 1 cut(s) 637
BseLI CCNNNNNNNGG 3 cut(s) 195, 486, 694
BseMI GCAATG 1 cut(s) 449
BseMII CTCAG 4 cut(s) 156, 347, 536, 747
BseNI ACTGG 3 cut(s) 140, 149, 633
BseRI GAGGAG 1 cut(s) 462
BseSI GKGCMC 2 cut(s) 271, 559
BseXI GCAGC 3 cut(s) 577, 634, 662
BseYI CCCAGC 1 cut(s) 515
BsgI GTGCAG 1 cut(s) 33
Bsh1236I CGCG 1 cut(s) 246
Bsh1285I CGRYCG 2 cut(s) 58, 682
BshFI GGCC 5 cut(s) 97, 199, 432, 574, 780
BshNI GGYRCC 1 cut(s) 121
BsiEI CGRYCG 2 cut(s) 58, 682
BsiHKAI GWGCWC 2 cut(s) 271, 559
BsiSI CCGG 1 cut(s) 408
BslI CCNNNNNNNGG 3 cut(s) 195, 486, 694
BsmAI GTCTC 1 cut(s) 167
BsmI GAATGC 1 cut(s) 610
BsnI GGCC 5 cut(s) 97, 199, 432, 574, 780
Bsp1286I GDGCHC 3 cut(s) 271, 523, 559
Bsp13I TCCGGA 1 cut(s) 407
Bsp143I GATC 4 cut(s) 16, 458, 582, 616
Bsp19I CCATGG 1 cut(s) 427
BspACI CCGC 3 cut(s) 203, 227, 244
BspANI GGCC 5 cut(s) 97, 199, 432, 574, 780
BspCNI CTCAG 4 cut(s) 157, 348, 535, 748
BspEI TCCGGA 1 cut(s) 407
BspFNI CGCG 1 cut(s) 246
BspHI TCATGA 1 cut(s) 600
BspLI GGNNCC 2 cut(s) 123, 412
BspMAI CTGCAG 1 cut(s) 652
BspMI ACCTGC 1 cut(s) 520
BspPI GGATC 1 cut(s) 466
BspT107I GGYRCC 1 cut(s) 121
BsrDI GCAATG 1 cut(s) 449
BsrI ACTGG 3 cut(s) 140, 149, 633
BssECI CCNNGG 4 cut(s) 190, 427, 485, 768
BssMI GATC 4 cut(s) 16, 458, 582, 616
BssT1I CCWWGG 1 cut(s) 427
Bst2UI CCWGG 3 cut(s) 486, 695, 769
Bst4CI ACNGT 2 cut(s) 251, 680
BstAPI GCANNNNNTGC 3 cut(s) 11, 266, 563
BstC8I GCNNGC 2 cut(s) 197, 201
BstDEI CTNAG 4 cut(s) 165, 356, 522, 756
BstDSI CCRYGG 2 cut(s) 190, 427
BstF5I GGATG 1 cut(s) 637
BstFNI CGCG 1 cut(s) 246
BstKTI GATC 4 cut(s) 19, 461, 585, 619
BstMAI GTCTC 1 cut(s) 167
BstMBI GATC 4 cut(s) 16, 458, 582, 616
BstMCI CGRYCG 2 cut(s) 58, 682
BstMWI GCNNNNNNNGC 4 cut(s) 11, 226, 266, 563
BstNI CCWGG 3 cut(s) 486, 695, 769
BstNSI RCATGY 1 cut(s) 275
BstSCI CCNGG 3 cut(s) 484, 693, 767
BstSFI CTRYAG 1 cut(s) 648
BstSLI GKGCMC 2 cut(s) 271, 559
BstUI CGCG 1 cut(s) 246
BstV1I GCAGC 3 cut(s) 577, 634, 662
BstV2I GAAGAC 1 cut(s) 614
BstX2I RGATCY 1 cut(s) 16
BstXI CCANNNNNNTGG 1 cut(s) 511
BstYI RGATCY 1 cut(s) 16
Bsu36I CCTNAGG 1 cut(s) 756
BsuRI GGCC 5 cut(s) 97, 199, 432, 574, 780
BtgI CCRYGG 2 cut(s) 190, 427
BtsCI GGATG 1 cut(s) 637
BtsI GCAGTG 1 cut(s) 386
BtsIMutI CAGTG 4 cut(s) 147, 256, 386, 626
BveI ACCTGC 1 cut(s) 520
Cac8I GCNNGC 2 cut(s) 197, 201
CaiI CAGNNNCTG 2 cut(s) 164, 575
CciI TCATGA 1 cut(s) 600
Cfr13I GGNCC 2 cut(s) 26, 572
CviAII CATG 4 cut(s) 272, 428, 586, 601
DdeI CTNAG 4 cut(s) 165, 356, 522, 756
DpnI GATC 4 cut(s) 18, 460, 584, 618
DpnII GATC 4 cut(s) 16, 458, 582, 616
DraIII CACNNNGTG 1 cut(s) 266
EaeI YGGCCR 2 cut(s) 430, 778
Eco130I CCWWGG 1 cut(s) 427
Eco147I AGGCCT 1 cut(s) 97
Eco24I GRGCYC 1 cut(s) 523
Eco47I GGWCC 1 cut(s) 26
Eco57I CTGAAG 2 cut(s) 141, 552
Eco81I CCTNAGG 1 cut(s) 756
EcoO109I RGGNCCY 2 cut(s) 26, 572
EcoRII CCWGG 3 cut(s) 484, 693, 767
EcoT14I CCWWGG 1 cut(s) 427
EcoT22I ATGCAT 1 cut(s) 112
EcoT38I GRGCYC 1 cut(s) 523
ErhI CCWWGG 1 cut(s) 427
FaeI CATG 4 cut(s) 275, 431, 589, 604
FatI CATG 4 cut(s) 271, 427, 585, 600
FauI CCCGC 2 cut(s) 196, 251
FbaI TGATCA 1 cut(s) 582
Fnu4HI GCNGC 4 cut(s) 227, 591, 648, 651
FokI GGATG 1 cut(s) 644
FriOI GRGCYC 1 cut(s) 523
Fsp4HI GCNGC 4 cut(s) 227, 591, 648, 651
FspBI CTAG 1 cut(s) 99
GluI GCNGC 4 cut(s) 227, 591, 648, 651
GsaI CCCAGC 1 cut(s) 519
HaeIII GGCC 5 cut(s) 97, 199, 432, 574, 780
HapII CCGG 1 cut(s) 408
Hin1II CATG 4 cut(s) 275, 431, 589, 604
HinfI GANTC 1 cut(s) 442
HpaII CCGG 1 cut(s) 408
HphI GGTGA 3 cut(s) 80, 232, 677
Hpy166II GTNNAC 3 cut(s) 269, 557, 763
Hpy188I TCNGA 3 cut(s) 166, 458, 706
Hpy188III TCNNGA 3 cut(s) 408, 601, 755
Hpy8I GTNNAC 3 cut(s) 269, 557, 763
HpyAV CCTTC 1 cut(s) 324
HpyCH4III ACNGT 2 cut(s) 251, 680
HpyF10VI GCNNNNNNNGC 4 cut(s) 11, 226, 266, 563
HpyF3I CTNAG 4 cut(s) 165, 356, 522, 756
Hsp92II CATG 4 cut(s) 275, 431, 589, 604
Kpn2I TCCGGA 1 cut(s) 407
Ksp22I TGATCA 1 cut(s) 582
Kzo9I GATC 4 cut(s) 16, 458, 582, 616
LmnI GCTCC 1 cut(s) 410
Lsp1109I GCAGC 3 cut(s) 577, 634, 662
LweI GCATC 4 cut(s) 58, 97, 170, 782
MaeI CTAG 1 cut(s) 99
MaeIII GTNAC 5 cut(s) 238, 373, 382, 418, 683
MalI GATC 4 cut(s) 18, 460, 584, 618
MboI GATC 4 cut(s) 16, 458, 582, 616
MboII GAAGA 3 cut(s) 147, 614, 647
MflI RGATCY 1 cut(s) 16
MhlI GDGCHC 3 cut(s) 271, 523, 559
MluCI AATT 1 cut(s) 45
Mph1103I ATGCAT 1 cut(s) 112
MroI TCCGGA 1 cut(s) 407
MseI TTAA 1 cut(s) 314
MspA1I CMGCKG 1 cut(s) 203
MspI CCGG 1 cut(s) 408
MspR9I CCNGG 3 cut(s) 486, 695, 769
Mva1269I GAATGC 1 cut(s) 610
MvaI CCWGG 3 cut(s) 486, 695, 769
MvnI CGCG 1 cut(s) 246
MwoI GCNNNNNNNGC 4 cut(s) 11, 226, 266, 563
NcoI CCATGG 1 cut(s) 427
NdeII GATC 4 cut(s) 16, 458, 582, 616
NlaIII CATG 4 cut(s) 275, 431, 589, 604
NlaIV GGNNCC 2 cut(s) 123, 412
NmuCI GTSAC 4 cut(s) 238, 382, 418, 683
NsiI ATGCAT 1 cut(s) 112
NspI RCATGY 1 cut(s) 275
PagI TCATGA 1 cut(s) 600
PceI AGGCCT 1 cut(s) 97
PctI GAATGC 1 cut(s) 610
PfeI GAWTC 1 cut(s) 442
PflMI CCANNNNNTGG 1 cut(s) 694
PkrI GCNGC 4 cut(s) 228, 592, 649, 652
PpuMI RGGWCCY 1 cut(s) 26
Psp5II RGGWCCY 1 cut(s) 26
Psp6I CCWGG 3 cut(s) 484, 693, 767
PspFI CCCAGC 1 cut(s) 515
PspGI CCWGG 3 cut(s) 484, 693, 767
PspN4I GGNNCC 2 cut(s) 123, 412
PspPI GGNCC 2 cut(s) 26, 572
PspPPI RGGWCCY 1 cut(s) 26
PsrI GAACNNNNNNTAC 2 cut(s) 653, 685
PstI CTGCAG 1 cut(s) 652
PstNI CAGNNNCTG 2 cut(s) 164, 575
PsuI RGATCY 1 cut(s) 16
SaqAI TTAA 1 cut(s) 314
SatI GCNGC 4 cut(s) 227, 591, 648, 651
Sau3AI GATC 4 cut(s) 16, 458, 582, 616
Sau96I GGNCC 2 cut(s) 26, 572
ScrFI CCNGG 3 cut(s) 486, 695, 769
SduI GDGCHC 3 cut(s) 271, 523, 559
SfaNI GCATC 4 cut(s) 58, 97, 170, 782
SfcI CTRYAG 1 cut(s) 648
SinI GGWCC 1 cut(s) 26
Sse9I AATT 1 cut(s) 45
SseBI AGGCCT 1 cut(s) 97
SsiI CCGC 3 cut(s) 203, 227, 244
SspMI CTAG 1 cut(s) 99
StuI AGGCCT 1 cut(s) 97
StyD4I CCNGG 3 cut(s) 484, 693, 767
StyI CCWWGG 1 cut(s) 427
TaaI ACNGT 2 cut(s) 251, 680
TaqI TCGA 1 cut(s) 54
TaqII GACCGA 1 cut(s) 72
TasI AATT 1 cut(s) 45
TauI GCSGC 1 cut(s) 229
TfiI GAWTC 1 cut(s) 442
Tru1I TTAA 1 cut(s) 314
Tru9I TTAA 1 cut(s) 314
TscAI CASTG 4 cut(s) 147, 256, 393, 633
TseFI GTSAC 4 cut(s) 238, 382, 418, 683
TseI GCWGC 3 cut(s) 590, 647, 650
Tsp45I GTSAC 4 cut(s) 238, 382, 418, 683
TspDTI ATGAA 4 cut(s) 589, 617, 648, 654
TspRI CASTG 4 cut(s) 147, 256, 393, 633
Van91I CCANNNNNTGG 1 cut(s) 694
VneI GTGCAC 2 cut(s) 267, 555
VpaK11BI GGWCC 1 cut(s) 26
XapI RAATTY 1 cut(s) 45
XceI RCATGY 1 cut(s) 275
XspI CTAG 1 cut(s) 99
Zsp2I ATGCAT 1 cut(s) 112
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.