FvH4_4g08640

HD domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb4
OG0011001
Physical Location & Seq
Reverse (-)
9062686 .. 9065314
2629 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_4g08640.t1

Sequence Viewer

Length: 738 bp
ATGAGCAGAGTGATCCTCTGTAAATCGCTCCTCCTTACACCCTCTCTCTTTTCCGCTCCCCTCACCTCCTTCAAGCCCACACTCCCCTCTTCTTCTTCTTCTAGGGCTCACCGCATGGCCACCGAAGCCTCCTCGTCACCATCATCCAACGCCGGCGGTGGTGACCCGACCTCTTCGTCTCCTCCTCCCGCCTCCTCCGCCATTGATTTCCTCTCCCTCTGTCACCGCCTTAAGACGACGAAGAGAGCTGGATGGGTTAAGAGAGGTGTGAAGGATCCAGAGTCCGTAGCTGACCATATGTACCGCATGAGTTTAATGGCTCTCATTGCTTCTGATATTCCTGGTCTCAATCGAGACAAGTGTATAAAGATCGCCATTGTTCATGACATTGCTGAAGCCATTGTTGGGGATATAACACCCACAGATGGGGTACCGAAGGAAGAGAAGAGCCGGCGAGAACAAGAGGCAATAGACCACATGTGCAAATTACTTGGTGGAGGCTCAATAGCTAAGGAACTAGGTGAACTGTGGTTGGAGTATGAGGGGAATTCCTCCCCAGAAGCTAAAATTGTTAAAGACTTTGACAAGGTGGAGATGATACTTCAAGCCTTGGAATATGAGAATGATCAAGGAAAGGACTTGGAAGAGTTTTTCCAGTCAACTGCTGGGAAATTCCAGACTGATGCAGGCAAAGCTTGGGCAGCAGAGATAGCATCCAGAAGAAAAAAACAAGGCTAA
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
HD_3

Protein Analysis

246

Amino Acids

26.55

Weight (kDa)

6.54

Isoelectric Point (pI)

55.43

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
YfbR-like PF12917 70 - 221 8.2e-07 5'-deoxynucleotidase YfbR-like
HD_3 PF13023 75 - 231 1.6e-49 HD domain
HD PF01966 96 - 199 1.1e-10 HD 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: OG0011001)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G23820 AT2G23820
fragaria_vesca FvH4_4g08640 FvH4_4g08640
malus_domestica MD13G1274800.v1.1
prunus_persica Prupe.1G099200_v2.0.a1 Prupe.1G099200_v2.0.a1
pyrus_communis pycom13g28700
rosa_chinensis RchiOBHm_Chr4g0405131
rosa_laevigata RLG00000008870
rosa_multiflora Rmu_sc0002480.1_g000031 Rmu_ssc0000255.1_g000040
rosa_roxburghii Rroxscaffold_5G00349360
rosa_rugosa Rorug04G0053800 Rorug04G0053900
rosa_samantha Rh4AG129100 Rh4BG122400 Rh4CG136200 Rh4DG122600
rosa_wichuraiana Rw4G010420

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 175
Acc65I GGTACC 1 cut(s) 430
AccB1I GGYRCC 1 cut(s) 430
AccBSI CCGCTC 1 cut(s) 56
AciI CCGC 7 cut(s) 54, 112, 156, 189, 198, 226, 304
AclWI GGATC 3 cut(s) 7, 269, 282
AcoI YGGCCR 1 cut(s) 117
AcsI RAATTY 2 cut(s) 547, 671
AcuI CTGAAG 1 cut(s) 414
AfaI GTAC 2 cut(s) 302, 432
AfiI CCNNNNNNNGG 3 cut(s) 405, 425, 426
AflII CTTAAG 1 cut(s) 230
AflIII ACRYGT 1 cut(s) 477
AgsI TTSAA 2 cut(s) 73, 605
AjnI CCWGG 1 cut(s) 340
AjuI GAANNNNNNNTTGG 2 cut(s) 387, 419
AluBI AGCT 5 cut(s) 248, 290, 509, 563, 695
AluI AGCT 5 cut(s) 248, 290, 509, 563, 695
Alw26I GTCTC 3 cut(s) 183, 348, 350
AlwI GGATC 3 cut(s) 7, 269, 282
AoxI GGCC 1 cut(s) 117
ApeKI GCWGC 1 cut(s) 701
ApoI RAATTY 2 cut(s) 547, 671
Asp718I GGTACC 1 cut(s) 430
AsuHPI GGTGA 6 cut(s) 55, 101, 129, 173, 215, 533
BalI TGGCCA 1 cut(s) 119
BamHI GGATCC 1 cut(s) 274
BanI GGYRCC 1 cut(s) 430
BanII GRGCYC 1 cut(s) 109
BbvI GCAGC 1 cut(s) 713
BccI CCATC 3 cut(s) 148, 246, 419
BciT130I CCWGG 1 cut(s) 342
BclI TGATCA 1 cut(s) 625
BcoDI GTCTC 3 cut(s) 183, 348, 350
BfaI CTAG 2 cut(s) 102, 518
BfrI CTTAAG 1 cut(s) 230
BisI GCNGC 1 cut(s) 702
BlsI GCNGC 1 cut(s) 703
Bme1390I CCNGG 1 cut(s) 342
BmiI GGNNCC 2 cut(s) 276, 432
BmrFI CCNGG 1 cut(s) 342
BmsI GCATC 2 cut(s) 673, 722
BplI GAGNNNNNCTC 1 cut(s) 32
Bpu10I CCTNAGC 1 cut(s) 510
BsaI GGTCTC 1 cut(s) 350
BsaJI CCNNGG 1 cut(s) 609
Bsc4I CCNNNNNNNGG 3 cut(s) 405, 425, 426
Bse118I RCCGGY 2 cut(s) 152, 450
Bse1I ACTGG 1 cut(s) 655
Bse3DI GCAATG 2 cut(s) 324, 387
BseBI CCWGG 1 cut(s) 342
BseDI CCNNGG 1 cut(s) 609
BseGI GGATG 3 cut(s) 143, 257, 713
BseLI CCNNNNNNNGG 3 cut(s) 405, 425, 426
BseMI GCAATG 2 cut(s) 324, 387
BseNI ACTGG 1 cut(s) 655
BseRI GAGGAG 5 cut(s) 20, 121, 171, 174, 184
BseXI GCAGC 1 cut(s) 713
BseYI CCCAGC 1 cut(s) 665
BshFI GGCC 1 cut(s) 119
BshNI GGYRCC 1 cut(s) 430
BsiSI CCGG 2 cut(s) 153, 451
BslI CCNNNNNNNGG 3 cut(s) 405, 425, 426
BsmAI GTCTC 3 cut(s) 183, 348, 350
BsmBI CGTCTC 1 cut(s) 183
BsnI GGCC 1 cut(s) 119
Bso31I GGTCTC 1 cut(s) 350
Bsp1286I GDGCHC 1 cut(s) 109
Bsp143I GATC 4 cut(s) 12, 274, 369, 625
BspACI CCGC 7 cut(s) 54, 112, 156, 189, 198, 226, 304
BspANI GGCC 1 cut(s) 119
BspHI TCATGA 1 cut(s) 382
BspLI GGNNCC 2 cut(s) 276, 432
BspPI GGATC 3 cut(s) 7, 269, 282
BspQI GCTCTTC 1 cut(s) 440
BspT107I GGYRCC 1 cut(s) 430
BspTI CTTAAG 1 cut(s) 230
BspTNI GGTCTC 1 cut(s) 350
BsrBI CCGCTC 1 cut(s) 56
BsrDI GCAATG 2 cut(s) 324, 387
BsrFI RCCGGY 2 cut(s) 152, 450
BsrI ACTGG 1 cut(s) 655
BssAI RCCGGY 2 cut(s) 152, 450
BssECI CCNNGG 1 cut(s) 609
BssMI GATC 4 cut(s) 12, 274, 369, 625
BssT1I CCWWGG 1 cut(s) 609
Bst2UI CCWGG 1 cut(s) 342
Bst4CI ACNGT 1 cut(s) 528
Bst6I CTCTTC 6 cut(s) 94, 178, 236, 435, 440, 639
BstAFI CTTAAG 1 cut(s) 230
BstC8I GCNNGC 3 cut(s) 154, 452, 688
BstDEI CTNAG 1 cut(s) 510
BstEII GGTNACC 1 cut(s) 161
BstF5I GGATG 3 cut(s) 143, 257, 713
BstKTI GATC 4 cut(s) 15, 277, 372, 628
BstMAI GTCTC 3 cut(s) 183, 348, 350
BstMBI GATC 4 cut(s) 12, 274, 369, 625
BstMWI GCNNNNNNNGC 6 cut(s) 125, 197, 326, 692, 701, 710
BstNI CCWGG 1 cut(s) 342
BstNSI RCATGY 1 cut(s) 481
BstPI GGTNACC 1 cut(s) 161
BstSCI CCNGG 1 cut(s) 340
BstV1I GCAGC 1 cut(s) 713
BstX2I RGATCY 1 cut(s) 274
BstYI RGATCY 1 cut(s) 274
BsuRI GGCC 1 cut(s) 119
BtsCI GGATG 3 cut(s) 143, 257, 713
Cac8I GCNNGC 3 cut(s) 154, 452, 688
CciI TCATGA 1 cut(s) 382
Cfr10I RCCGGY 2 cut(s) 152, 450
Csp6I GTAC 2 cut(s) 301, 431
CviAII CATG 4 cut(s) 115, 307, 383, 478
CviQI GTAC 2 cut(s) 301, 431
DdeI CTNAG 1 cut(s) 510
DpnI GATC 4 cut(s) 14, 276, 371, 627
DpnII GATC 4 cut(s) 12, 274, 369, 625
DrdI GACNNNNNNGTC 1 cut(s) 175
DseDI GACNNNNNNGTC 1 cut(s) 175
EaeI YGGCCR 1 cut(s) 117
Eam1104I CTCTTC 6 cut(s) 94, 178, 236, 435, 440, 639
EarI CTCTTC 6 cut(s) 94, 178, 236, 435, 440, 639
EciI GGCGGA 1 cut(s) 187
Eco130I CCWWGG 1 cut(s) 609
Eco24I GRGCYC 1 cut(s) 109
Eco31I GGTCTC 1 cut(s) 350
Eco57I CTGAAG 1 cut(s) 414
Eco91I GGTNACC 1 cut(s) 161
EcoO65I GGTNACC 1 cut(s) 161
EcoRI GAATTC 1 cut(s) 547
EcoRII CCWGG 1 cut(s) 340
EcoT14I CCWWGG 1 cut(s) 609
EcoT38I GRGCYC 1 cut(s) 109
ErhI CCWWGG 1 cut(s) 609
Esp3I CGTCTC 1 cut(s) 183
FaeI CATG 4 cut(s) 118, 310, 386, 481
FatI CATG 4 cut(s) 114, 306, 382, 477
FauI CCCGC 1 cut(s) 196
FauNDI CATATG 1 cut(s) 297
FbaI TGATCA 1 cut(s) 625
Fnu4HI GCNGC 1 cut(s) 702
FokI GGATG 3 cut(s) 130, 264, 700
FriOI GRGCYC 1 cut(s) 109
Fsp4HI GCNGC 1 cut(s) 702
FspBI CTAG 2 cut(s) 102, 518
GluI GCNGC 1 cut(s) 702
GsaI CCCAGC 1 cut(s) 669
HaeIII GGCC 1 cut(s) 119
HapII CCGG 2 cut(s) 153, 451
Hin1II CATG 4 cut(s) 118, 310, 386, 481
HincII GTYRAC 1 cut(s) 660
HindII GTYRAC 1 cut(s) 660
HindIII AAGCTT 1 cut(s) 693
HinfI GANTC 1 cut(s) 281
HpaII CCGG 2 cut(s) 153, 451
HphI GGTGA 6 cut(s) 55, 101, 129, 173, 215, 533
Hpy166II GTNNAC 2 cut(s) 524, 660
Hpy188I TCNGA 1 cut(s) 334
Hpy188III TCNNGA 5 cut(s) 278, 353, 383, 676, 717
Hpy8I GTNNAC 2 cut(s) 524, 660
Hpy99I CGWCG 1 cut(s) 241
HpyAV CCTTC 3 cut(s) 79, 265, 430
HpyCH4III ACNGT 1 cut(s) 528
HpyCH4V TGCA 2 cut(s) 483, 686
HpyF10VI GCNNNNNNNGC 6 cut(s) 125, 197, 326, 692, 701, 710
HpyF3I CTNAG 1 cut(s) 510
Hsp92II CATG 4 cut(s) 118, 310, 386, 481
KpnI GGTACC 1 cut(s) 434
KroI GCCGGC 2 cut(s) 152, 450
KroNI GCCGGC 2 cut(s) 154, 452
Ksp22I TGATCA 1 cut(s) 625
Kzo9I GATC 4 cut(s) 12, 274, 369, 625
LguI GCTCTTC 1 cut(s) 440
LmnI GCTCC 2 cut(s) 33, 61
Lsp1109I GCAGC 1 cut(s) 713
LweI GCATC 2 cut(s) 673, 722
MaeI CTAG 2 cut(s) 102, 518
MaeIII GTNAC 3 cut(s) 135, 161, 221
MalI GATC 4 cut(s) 14, 276, 371, 627
MbiI CCGCTC 1 cut(s) 56
MboI GATC 4 cut(s) 12, 274, 369, 625
MflI RGATCY 1 cut(s) 274
MhlI GDGCHC 1 cut(s) 109
MlsI TGGCCA 1 cut(s) 119
MluCI AATT 4 cut(s) 485, 547, 567, 671
MluNI TGGCCA 1 cut(s) 119
MlyI GAGTC 1 cut(s) 290
MmeI TCCRAC 2 cut(s) 171, 513
Mox20I TGGCCA 1 cut(s) 119
MreI CGCCGGCG 1 cut(s) 152
MroNI GCCGGC 2 cut(s) 152, 450
MscI TGGCCA 1 cut(s) 119
MseI TTAA 4 cut(s) 231, 258, 314, 573
Msp20I TGGCCA 1 cut(s) 119
MspCI CTTAAG 1 cut(s) 230
MspI CCGG 2 cut(s) 153, 451
MspR9I CCNGG 1 cut(s) 342
MvaI CCWGG 1 cut(s) 342
MwoI GCNNNNNNNGC 6 cut(s) 125, 197, 326, 692, 701, 710
NaeI GCCGGC 2 cut(s) 154, 452
NdeI CATATG 1 cut(s) 297
NdeII GATC 4 cut(s) 12, 274, 369, 625
NgoMIV GCCGGC 2 cut(s) 152, 450
NlaIII CATG 4 cut(s) 118, 310, 386, 481
NlaIV GGNNCC 2 cut(s) 276, 432
NmuCI GTSAC 3 cut(s) 135, 161, 221
NspI RCATGY 1 cut(s) 481
PagI TCATGA 1 cut(s) 382
PciI ACATGT 1 cut(s) 477
PciSI GCTCTTC 1 cut(s) 440
PdiI GCCGGC 2 cut(s) 154, 452
PkrI GCNGC 1 cut(s) 703
PleI GAGTC 1 cut(s) 289
PpsI GAGTC 1 cut(s) 289
PscI ACATGT 1 cut(s) 477
Psp6I CCWGG 1 cut(s) 340
PspEI GGTNACC 1 cut(s) 161
PspFI CCCAGC 1 cut(s) 665
PspGI CCWGG 1 cut(s) 340
PspN4I GGNNCC 2 cut(s) 276, 432
PsuI RGATCY 1 cut(s) 274
RsaI GTAC 2 cut(s) 302, 432
RsaNI GTAC 2 cut(s) 301, 431
SapI GCTCTTC 1 cut(s) 440
SaqAI TTAA 4 cut(s) 231, 258, 314, 573
SatI GCNGC 1 cut(s) 702
Sau3AI GATC 4 cut(s) 12, 274, 369, 625
SchI GAGTC 1 cut(s) 290
ScrFI CCNGG 1 cut(s) 342
SduI GDGCHC 1 cut(s) 109
SfaNI GCATC 2 cut(s) 673, 722
SgrAI CRCCGGYG 1 cut(s) 152
SmlI CTYRAG 1 cut(s) 230
SmoI CTYRAG 1 cut(s) 230
Sse9I AATT 4 cut(s) 485, 547, 567, 671
SsiI CCGC 7 cut(s) 54, 112, 156, 189, 198, 226, 304
SspMI CTAG 2 cut(s) 102, 518
StyD4I CCNGG 1 cut(s) 340
StyI CCWWGG 1 cut(s) 609
TaaI ACNGT 1 cut(s) 528
TaqI TCGA 1 cut(s) 352
TasI AATT 4 cut(s) 485, 547, 567, 671
Tru1I TTAA 4 cut(s) 231, 258, 314, 573
Tru9I TTAA 4 cut(s) 231, 258, 314, 573
TseFI GTSAC 3 cut(s) 135, 161, 221
TseI GCWGC 1 cut(s) 701
Tsp45I GTSAC 3 cut(s) 135, 161, 221
TspDTI ATGAA 1 cut(s) 371
TspGWI ACGGA 1 cut(s) 274
Vha464I CTTAAG 1 cut(s) 230
XapI RAATTY 2 cut(s) 547, 671
XceI RCATGY 1 cut(s) 481
XcmI CCANNNNNNNNNTGG 1 cut(s) 662
XspI CTAG 2 cut(s) 102, 518
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.