FvH4_5g26230

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
Fvb5
OG0014937
Physical Location & Seq
Forward (+)
17684148 .. 17686319
2172 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_5g26230.t1

Sequence Viewer

Length: 942 bp
ATGGCGGGGTACAATGGCAGATCAGAATATATGCAACTCTTCCGCCCTGAACTGCACCTCCAGAGACCACCGCCACCATCCATCTCTGTTCCGCCGCAGCAGCAACAGCAACAACAGCCTCAACCTTCGTCCGATTCTCAGCAGCAAGAAGACTCTCCCGAAGGGGACCAAGAACACAAGATCGAGTCAGACACCGCCGCAACTAGTTCCGGAGGCGGCGGTGGGAGTGGCGGTGGGGGATCAGGGCGTCGTCCTCGGGGGCGTCCTGCAGGGTCAAAGAACAAGCCGAAGCCTCCGATCATCGTGACGCGAGACAGCCCCAACGCGCTCCGGTCGCATGTGCTGGAAGTCTCGGCCGGGGCAGACGTGATGGAGAGCGTGTCTCACTACGCGAGGCGGAGGGGGAGAGGAGTCTGCGTGCTCAACGGCACCGGCACAGTCGTCAACGTCACTCTGCGTCAGCCGGCGGCGCCGACGGGGAGCGTGGTCACTCTCCACGGGAGGTTCGAGATACTCTCGCTCTCGGGGACGGTGCTGCCTCCTCCGGCCCCTCCCGGCGCCGGTGGACTGTCCATCTTCTTGGCGGGCGGGCAGGGGCAGGTGGTTGGGGGCAGCGTGGTGGGCCCGCTGCTGGCTTCAGGGCCGGTGGTTTTGATGGCTGCGTCGTTTGCGAATGCGGTGTTTGAGAGGCTGCCATTGGAGGAGGAAGAGGCGGGGGGAGATGGTGGGTTACAGGTCCAGCAACCGACGGCTTCACAGTCTTCAGGAGTCACCGGCGGTGGTGGAGGAGGACAGCAGCAGCAGCTTGGTGAGGGAAGTAGCAGCGCAGTCTTTAATCTGGGAGGGAATATGGGGGCGGGGAGCTATCCAACGTATTCTGGAACTGACCTGTACGGGTGGGGCAGCGGCGGAGGAGTTACTCATCCGCGGCCTCCGTTTTAG
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

314

Amino Acids

31.73

Weight (kDa)

6.31

Isoelectric Point (pI)

73.08

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PCC PF03479 111 - 224 3.5e-22 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: OG0014937)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G20900 AT1G76500
fragaria_vesca FvH4_5g26230
malus_domestica MD06G1003000.v1.1
prunus_persica Prupe.5G004600_v2.0.a1
pyrus_communis pycom06g00310
rosa_chinensis RchiOBHm_Chr7g0216901
rosa_laevigata RLG00000002528
rosa_multiflora Rmu_sc0000854.1_g000020
rosa_roxburghii Rroxscaffold_3G00242760
rosa_rugosa Rorug07G0164300
rosa_samantha Rh7AG304600 Rh7BG296100 Rh7CG323000 Rh7DG304600
rosa_wichuraiana Rw7G025860

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 589
Acc36I ACCTGC 1 cut(s) 589
AccB1I GGYRCC 3 cut(s) 428, 469, 557
AccII CGCG 4 cut(s) 310, 326, 392, 928
AccIII TCCGGA 1 cut(s) 209
AclWI GGATC 1 cut(s) 247
AcoI YGGCCR 1 cut(s) 354
AcuI CTGAAG 2 cut(s) 621, 747
AcyI GRCGYC 4 cut(s) 247, 262, 470, 558
AfaI GTAC 2 cut(s) 11, 893
AfiI CCNNNNNNNGG 2 cut(s) 560, 631
AhlI ACTAGT 1 cut(s) 203
AjiI CACGTC 1 cut(s) 367
AloI GAACNNNNNNTCC 2 cut(s) 42, 74
AluBI AGCT 2 cut(s) 805, 864
AluI AGCT 2 cut(s) 805, 864
Alw21I GWGCWC 1 cut(s) 423
Alw26I GTCTC 4 cut(s) 58, 306, 355, 387
AlwI GGATC 1 cut(s) 247
Ama87I CYCGRG 2 cut(s) 255, 523
Aor13HI TCCGGA 1 cut(s) 209
AoxI GGCC 5 cut(s) 354, 546, 622, 641, 929
ApaI GGGCCC 1 cut(s) 626
AspLEI GCGC 4 cut(s) 328, 472, 560, 827
AspS9I GGNCC 6 cut(s) 166, 547, 622, 623, 641, 736
AsuC2I CCSGG 2 cut(s) 358, 555
AsuHPI GGTGA 2 cut(s) 763, 821
AvaI CYCGRG 2 cut(s) 255, 523
AvaII GGWCC 2 cut(s) 166, 736
BaeGI GKGCMC 1 cut(s) 626
BanI GGYRCC 3 cut(s) 428, 469, 557
BanII GRGCYC 1 cut(s) 626
BbsI GAAGAC 2 cut(s) 156, 753
Bbv12I GWGCWC 1 cut(s) 423
BccI CCATC 6 cut(s) 85, 89, 364, 581, 649, 716
BceAI ACGGC 2 cut(s) 442, 765
BcnI CCSGG 2 cut(s) 358, 555
BcoDI GTCTC 4 cut(s) 58, 306, 355, 387
BcuI ACTAGT 1 cut(s) 203
BfaI CTAG 1 cut(s) 204
BfmI CTRYAG 1 cut(s) 267
BfoI RGCGCY 2 cut(s) 473, 561
BfuAI ACCTGC 1 cut(s) 589
Bme1390I CCNGG 2 cut(s) 358, 555
Bme18I GGWCC 2 cut(s) 166, 736
BmeT110I CYCGRG 2 cut(s) 255, 523
BmgBI CACGTC 1 cut(s) 367
BmgT120I GGNCC 6 cut(s) 166, 547, 622, 623, 641, 736
BmiI GGNNCC 6 cut(s) 167, 430, 471, 549, 559, 624
BmrFI CCNGG 2 cut(s) 358, 555
BpiI GAAGAC 2 cut(s) 156, 753
BplI GAGNNNNNCTC 4 cut(s) 367, 399, 500, 532
BpmI CTGGAG 1 cut(s) 44
BpuMI CCSGG 2 cut(s) 358, 555
BsaHI GRCGYC 4 cut(s) 247, 262, 470, 558
BsaI GGTCTC 1 cut(s) 58
BsaJI CCNNGG 4 cut(s) 254, 357, 496, 926
BsaWI WCCGGW 2 cut(s) 209, 330
BsaXI ACNNNNNCTCC 8 cut(s) 42, 72, 217, 247, 365, 395, 402, 432
Bsc4I CCNNNNNNNGG 2 cut(s) 560, 631
Bse118I RCCGGY 5 cut(s) 431, 463, 560, 643, 773
BseAI TCCGGA 1 cut(s) 209
BseDI CCNNGG 4 cut(s) 254, 357, 496, 926
BseGI GGATG 2 cut(s) 77, 922
BseLI CCNNNNNNNGG 2 cut(s) 560, 631
BseMII CTCAG 1 cut(s) 152
BseRI GAGGAG 5 cut(s) 423, 531, 716, 801, 927
BseSI GKGCMC 1 cut(s) 626
BseX3I CGGCCG 1 cut(s) 354
BsgI GTGCAG 1 cut(s) 38
Bsh1236I CGCG 4 cut(s) 310, 326, 392, 928
Bsh1285I CGRYCG 2 cut(s) 335, 357
BshFI GGCC 5 cut(s) 356, 548, 624, 643, 931
BshNI GGYRCC 3 cut(s) 428, 469, 557
BsiEI CGRYCG 2 cut(s) 335, 357
BsiHKAI GWGCWC 1 cut(s) 423
BsiHKCI CYCGRG 2 cut(s) 255, 523
BslFI GGGAC 2 cut(s) 179, 541
BslI CCNNNNNNNGG 2 cut(s) 560, 631
BsmAI GTCTC 4 cut(s) 58, 306, 355, 387
BsmFI GGGAC 2 cut(s) 179, 541
BsmI GAATGC 1 cut(s) 679
BsnI GGCC 5 cut(s) 356, 548, 624, 643, 931
Bso31I GGTCTC 1 cut(s) 58
BsoBI CYCGRG 2 cut(s) 255, 523
Bsp120I GGGCCC 1 cut(s) 622
Bsp1286I GDGCHC 2 cut(s) 423, 626
Bsp13I TCCGGA 1 cut(s) 209
Bsp143I GATC 4 cut(s) 20, 180, 239, 297
BspANI GGCC 5 cut(s) 356, 548, 624, 643, 931
BspCNI CTCAG 1 cut(s) 151
BspEI TCCGGA 1 cut(s) 209
BspFNI CGCG 4 cut(s) 310, 326, 392, 928
BspLI GGNNCC 6 cut(s) 167, 430, 471, 549, 559, 624
BspMAI CTGCAG 1 cut(s) 271
BspMI ACCTGC 1 cut(s) 589
BspPI GGATC 1 cut(s) 247
BspT107I GGYRCC 3 cut(s) 428, 469, 557
BspTNI GGTCTC 1 cut(s) 58
BsrFI RCCGGY 5 cut(s) 431, 463, 560, 643, 773
BssAI RCCGGY 5 cut(s) 431, 463, 560, 643, 773
BssECI CCNNGG 4 cut(s) 254, 357, 496, 926
BssMI GATC 4 cut(s) 20, 180, 239, 297
BssNI GRCGYC 4 cut(s) 247, 262, 470, 558
Bst4CI ACNGT 4 cut(s) 439, 532, 570, 759
Bst6I CTCTTC 2 cut(s) 44, 702
BstACI GRCGYC 4 cut(s) 247, 262, 470, 558
BstC8I GCNNGC 6 cut(s) 419, 465, 586, 590, 626, 633
BstDEI CTNAG 1 cut(s) 138
BstDSI CCRYGG 2 cut(s) 496, 926
BstF5I GGATG 2 cut(s) 77, 922
BstFNI CGCG 4 cut(s) 310, 326, 392, 928
BstH2I RGCGCY 2 cut(s) 473, 561
BstHHI GCGC 4 cut(s) 328, 472, 560, 827
BstKTI GATC 4 cut(s) 23, 183, 242, 300
BstMAI GTCTC 4 cut(s) 58, 306, 355, 387
BstMBI GATC 4 cut(s) 20, 180, 239, 297
BstMCI CGRYCG 2 cut(s) 335, 357
BstMWI GCNNNNNNNGC 8 cut(s) 100, 106, 115, 334, 469, 621, 668, 802
BstNSI RCATGY 1 cut(s) 341
BstSCI CCNGG 2 cut(s) 356, 553
BstSFI CTRYAG 1 cut(s) 267
BstSLI GKGCMC 1 cut(s) 626
BstUI CGCG 4 cut(s) 310, 326, 392, 928
BstV2I GAAGAC 2 cut(s) 156, 753
BstXI CCANNNNNNTGG 1 cut(s) 580
BstZI CGGCCG 1 cut(s) 354
BsuRI GGCC 5 cut(s) 356, 548, 624, 643, 931
BtgI CCRYGG 2 cut(s) 496, 926
BtrI CACGTC 1 cut(s) 367
BtsCI GGATG 2 cut(s) 77, 922
BveI ACCTGC 1 cut(s) 589
Cac8I GCNNGC 6 cut(s) 419, 465, 586, 590, 626, 633
CfoI GCGC 4 cut(s) 328, 472, 560, 827
Cfr10I RCCGGY 5 cut(s) 431, 463, 560, 643, 773
Cfr13I GGNCC 6 cut(s) 166, 547, 622, 623, 641, 736
Cfr42I CCGCGG 1 cut(s) 929
CseI GACGC 5 cut(s) 236, 251, 316, 446, 651
Csp6I GTAC 2 cut(s) 10, 892
CviAII CATG 1 cut(s) 338
CviQI GTAC 2 cut(s) 10, 892
DdeI CTNAG 1 cut(s) 138
DinI GGCGCC 2 cut(s) 471, 559
DpnI GATC 4 cut(s) 22, 182, 241, 299
DpnII GATC 4 cut(s) 20, 180, 239, 297
EaeI YGGCCR 1 cut(s) 354
EagI CGGCCG 1 cut(s) 354
Eam1104I CTCTTC 2 cut(s) 44, 702
EarI CTCTTC 2 cut(s) 44, 702
EciI GGCGGA 4 cut(s) 32, 81, 412, 924
EclXI CGGCCG 1 cut(s) 354
Eco24I GRGCYC 1 cut(s) 626
Eco31I GGTCTC 1 cut(s) 58
Eco47I GGWCC 2 cut(s) 166, 736
Eco52I CGGCCG 1 cut(s) 354
Eco57I CTGAAG 2 cut(s) 621, 747
Eco88I CYCGRG 2 cut(s) 255, 523
EcoT38I GRGCYC 1 cut(s) 626
EgeI GGCGCC 2 cut(s) 471, 559
EheI GGCGCC 2 cut(s) 471, 559
FaeI CATG 1 cut(s) 341
FaiI YATR 4 cut(s) 30, 32, 339, 851
FaqI GGGAC 2 cut(s) 179, 541
FatI CATG 1 cut(s) 337
FauI CCCGC 5 cut(s) 577, 581, 633, 706, 850
FokI GGATG 2 cut(s) 64, 909
FriOI GRGCYC 1 cut(s) 626
FspBI CTAG 1 cut(s) 204
GlaI GCGC 4 cut(s) 327, 471, 559, 826
GsuI CTGGAG 1 cut(s) 44
HaeII RGCGCY 2 cut(s) 473, 561
HaeIII GGCC 5 cut(s) 356, 548, 624, 643, 931
HgaI GACGC 5 cut(s) 236, 251, 316, 446, 651
HhaI GCGC 4 cut(s) 328, 472, 560, 827
Hin1I GRCGYC 4 cut(s) 247, 262, 470, 558
Hin1II CATG 1 cut(s) 341
Hin6I GCGC 4 cut(s) 326, 470, 558, 825
HinP1I GCGC 4 cut(s) 326, 470, 558, 825
HincII GTYRAC 1 cut(s) 445
HindII GTYRAC 1 cut(s) 445
HinfI GANTC 5 cut(s) 134, 152, 185, 411, 768
HphI GGTGA 2 cut(s) 763, 821
Hpy166II GTNNAC 2 cut(s) 445, 566
Hpy188I TCNGA 4 cut(s) 25, 133, 190, 297
Hpy188III TCNNGA 7 cut(s) 61, 158, 210, 304, 508, 765, 879
Hpy8I GTNNAC 2 cut(s) 445, 566
Hpy99I CGWCG 4 cut(s) 252, 478, 667, 751
HpyAV CCTTC 2 cut(s) 135, 155
HpyCH4III ACNGT 4 cut(s) 439, 532, 570, 759
HpyCH4IV ACGT 3 cut(s) 366, 447, 872
HpyCH4V TGCA 3 cut(s) 34, 55, 269
HpyF10VI GCNNNNNNNGC 8 cut(s) 100, 106, 115, 334, 469, 621, 668, 802
HpyF3I CTNAG 1 cut(s) 138
HpySE526I ACGT 3 cut(s) 366, 447, 872
Hsp92I GRCGYC 4 cut(s) 247, 262, 470, 558
Hsp92II CATG 1 cut(s) 341
HspAI GCGC 4 cut(s) 326, 470, 558, 825
KasI GGCGCC 2 cut(s) 469, 557
Kpn2I TCCGGA 1 cut(s) 209
KroI GCCGGC 1 cut(s) 463
KroNI GCCGGC 1 cut(s) 465
KspI CCGCGG 1 cut(s) 929
Kzo9I GATC 4 cut(s) 20, 180, 239, 297
LmnI GCTCC 3 cut(s) 333, 480, 861
MaeI CTAG 1 cut(s) 204
MaeII ACGT 3 cut(s) 366, 447, 872
MaeIII GTNAC 6 cut(s) 304, 448, 487, 729, 769, 916
MalI GATC 4 cut(s) 22, 182, 241, 299
MboI GATC 4 cut(s) 20, 180, 239, 297
MboII GAAGA 5 cut(s) 31, 161, 568, 719, 753
MhlI GDGCHC 2 cut(s) 423, 626
Mly113I GGCGCC 2 cut(s) 470, 558
MlyI GAGTC 4 cut(s) 146, 194, 420, 777
MmeI TCCRAC 1 cut(s) 893
MroI TCCGGA 1 cut(s) 209
MroNI GCCGGC 1 cut(s) 463
MseI TTAA 1 cut(s) 834
MspA1I CMGCKG 3 cut(s) 628, 906, 928
MspR9I CCNGG 2 cut(s) 358, 555
Mva1269I GAATGC 1 cut(s) 679
MvnI CGCG 4 cut(s) 310, 326, 392, 928
MwoI GCNNNNNNNGC 8 cut(s) 100, 106, 115, 334, 469, 621, 668, 802
NaeI GCCGGC 1 cut(s) 465
NarI GGCGCC 2 cut(s) 470, 558
NciI CCSGG 2 cut(s) 358, 555
NdeII GATC 4 cut(s) 20, 180, 239, 297
NgoMIV GCCGGC 1 cut(s) 463
NlaIII CATG 1 cut(s) 341
NlaIV GGNNCC 6 cut(s) 167, 430, 471, 549, 559, 624
NmeAIII GCCGAG 1 cut(s) 332
NmuCI GTSAC 4 cut(s) 304, 448, 487, 769
NspI RCATGY 1 cut(s) 341
PaqCI CACCTGC 1 cut(s) 589
PcsI WCGNNNNNNNCGW 1 cut(s) 504
PctI GAATGC 1 cut(s) 679
PdiI GCCGGC 1 cut(s) 465
PfeI GAWTC 1 cut(s) 134
PleI GAGTC 4 cut(s) 146, 193, 419, 776
PluTI GGCGCC 2 cut(s) 473, 561
PpsI GAGTC 4 cut(s) 146, 193, 419, 776
PspN4I GGNNCC 6 cut(s) 167, 430, 471, 549, 559, 624
PspOMI GGGCCC 1 cut(s) 622
PspPI GGNCC 6 cut(s) 166, 547, 622, 623, 641, 736
PstI CTGCAG 1 cut(s) 271
RsaI GTAC 2 cut(s) 11, 893
RsaNI GTAC 2 cut(s) 10, 892
SacII CCGCGG 1 cut(s) 929
SaqAI TTAA 1 cut(s) 834
Sau3AI GATC 4 cut(s) 20, 180, 239, 297
Sau96I GGNCC 6 cut(s) 166, 547, 622, 623, 641, 736
SbfI CCTGCAGG 1 cut(s) 271
SchI GAGTC 4 cut(s) 146, 194, 420, 777
ScrFI CCNGG 2 cut(s) 358, 555
SdaI CCTGCAGG 1 cut(s) 271
SduI GDGCHC 2 cut(s) 423, 626
SfcI CTRYAG 1 cut(s) 267
SfoI GGCGCC 2 cut(s) 471, 559
Sfr303I CCGCGG 1 cut(s) 929
SgrAI CRCCGGYG 2 cut(s) 560, 773
SgrBI CCGCGG 1 cut(s) 929
SinI GGWCC 2 cut(s) 166, 736
SpeI ACTAGT 1 cut(s) 203
Sse8387I CCTGCAGG 1 cut(s) 271
SspDI GGCGCC 2 cut(s) 469, 557
SspMI CTAG 1 cut(s) 204
StyD4I CCNGG 2 cut(s) 356, 553
TaaI ACNGT 4 cut(s) 439, 532, 570, 759
TaiI ACGT 3 cut(s) 369, 450, 875
TaqI TCGA 2 cut(s) 183, 507
TauI GCSGC 6 cut(s) 97, 200, 219, 470, 909, 931
TfiI GAWTC 1 cut(s) 134
Tru1I TTAA 1 cut(s) 834
Tru9I TTAA 1 cut(s) 834
TseFI GTSAC 4 cut(s) 304, 448, 487, 769
Tsp45I GTSAC 4 cut(s) 304, 448, 487, 769
TspGWI ACGGA 1 cut(s) 924
VpaK11BI GGWCC 2 cut(s) 166, 736
XceI RCATGY 1 cut(s) 341
XspI CTAG 1 cut(s) 204
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.