FvH4_5g01300

RmlD substrate binding domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb5
OG0014012
Physical Location & Seq
Forward (+)
808594 .. 810454
1861 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_5g01300.t1

Sequence Viewer

Length: 903 bp
ATGGGTTTTCCGGCCAACGGCGCCACCGCCGATCAACACCTCAAGTTCTTGATCTACGGCAAGACCGGCTGGATTGGCGGCCTCCTCGGCAAGATATGCCAATCCCAGAGCATTAGCTACGAGTACGGCTCCGGCCGCCTCGAGAACCGCTCCTCCCTCGAAGCCGACCTCGCCGCCGTCAAGCCCACCCACGTCTTCAACGCCGCCGGCGTCACCGGCCGCCCCAACGTCGACTGGTGCGAGTCCCACAAGGTGGAGACCATCCGCGCCAACGTTGTGGGGACGTTGACACTCGCCGACGTCTGCCGTGAACGCGGCCTTGTGCTCATTAACTACGCCACAGGGTGCATTTTCGAGTACGACCAGGCTCACCCTGAAGGCTCCGGCATCGGCTTCAAGGAGGAGGACACCCCCAACTTCATCGGATCTTTCTATTCCAAGACCAAGGCCATGGTGGAAGATCTGCTCAAGAATTACGAGAATGTGTGTACTCTACGCGTTAGAATGCCCATTTCATCCGACTTGCAGAACCCGCGAAACTTCATCACCAAGATTGCGCGATATGATAAGGTGGTCAACATTCCAAACTCCATGACAATCTTGGACGAGCTACTCCCCATTTCGGTGGAGATGGCAAAGAGGAATCTCACCGGAATCTGGAACTTCACCAACCCCGGAGTGGTCAGCCACAATGAGATCTTGGAGATGTACAAGCAATACATTGACCCCAGCTACACCTGGAAGAACTTCAATCTTGAGGAGCAGGCAAAGGTGATTGTTGCTCCGAGGAGCAACAATGAACTCGATGCTTCAAAATTGAAGAAAGAGTTCCCTGAGCTCTTGTCCATCAAGGAGTCTCTCATCAAGAATGTGTTCAAGCCAAACCAAAAGACTGCTGCTTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00520 ko00523 ko01130 map00520 map00523 map01130
Pfam Domains
Protein Families
RmlD_sub_bind

Protein Analysis

301

Amino Acids

33.56

Weight (kDa)

6.96

Isoelectric Point (pI)

28.68

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RmlD_sub_bind PF04321 15 - 186 1.1e-14 RmlD substrate binding domain
GDP_Man_Dehyd PF16363 39 - 184 5.2e-06 GDP-mannose 4,6 dehydratase
Epimerase PF01370 45 - 171 1.2e-12 NAD dependent epimerase/dehydratase family
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: OG0014012)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G63000
fragaria_vesca FvH4_5g01300 FvH4_6g38001
malus_domestica MD04G1069500.v1.1 MD06G1070600.v1.1
prunus_persica Prupe.5G088400_v2.0.a1
pyrus_communis pycom06g06970
rosa_chinensis RchiOBHm_Chr7g0199641
rosa_laevigata RLG00000003780
rosa_multiflora Rmu_sc0009191.1_g000005
rosa_roxburghii Rroxscaffold_3G00256530
rosa_rugosa Rorug07G0055500
rosa_samantha Rh7AG180500 Rh7BG183500 Rh7CG190200 Rh7DG183400
rosa_wichuraiana Rw7G015860

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 303
AccB1I GGYRCC 1 cut(s) 20
AccB7I CCANNNNNTGG 1 cut(s) 253
AccBSI CCGCTC 1 cut(s) 150
AccI GTMKAC 1 cut(s) 231
AccII CGCG 5 cut(s) 267, 315, 498, 535, 559
AclI AACGTT 1 cut(s) 273
AclWI GGATC 1 cut(s) 433
AcoI YGGCCR 3 cut(s) 12, 133, 217
AcuI CTGAAG 1 cut(s) 396
AcyI GRCGYC 3 cut(s) 21, 210, 300
AdeI CACNNNGTG 2 cut(s) 253, 345
AfaI GTAC 4 cut(s) 125, 359, 490, 710
AfiI CCNNNNNNNGG 5 cut(s) 17, 253, 622, 657, 679
AflIII ACRYGT 1 cut(s) 496
AgsI TTSAA 6 cut(s) 199, 397, 751, 813, 820, 877
AjiI CACGTC 1 cut(s) 193
AjnI CCWGG 2 cut(s) 363, 737
AloI GAACNNNNNNTCC 2 cut(s) 137, 169
AluBI AGCT 4 cut(s) 117, 610, 732, 838
AluI AGCT 4 cut(s) 117, 610, 732, 838
Alw21I GWGCWC 2 cut(s) 327, 840
Alw26I GTCTC 2 cut(s) 251, 861
AlwI GGATC 1 cut(s) 433
Ama87I CYCGRG 1 cut(s) 140
AoxI GGCC 6 cut(s) 12, 79, 133, 217, 316, 447
ApeKI GCWGC 1 cut(s) 896
Asp700I GAANNNNTTC 3 cut(s) 746, 827, 872
AspLEI GCGC 3 cut(s) 23, 269, 559
AsuC2I CCSGG 1 cut(s) 675
AsuHPI GGTGA 6 cut(s) 205, 362, 538, 640, 658, 784
AvaI CYCGRG 1 cut(s) 140
BanI GGYRCC 1 cut(s) 20
BanII GRGCYC 1 cut(s) 840
BbsI GAAGAC 1 cut(s) 187
Bbv12I GWGCWC 2 cut(s) 327, 840
BbvI GCAGC 1 cut(s) 883
BccI CCATC 3 cut(s) 269, 625, 854
BceAI ACGGC 5 cut(s) 34, 73, 142, 161, 291
BciT130I CCWGG 2 cut(s) 365, 739
BcnI CCSGG 1 cut(s) 675
BcoDI GTCTC 2 cut(s) 251, 861
BfoI RGCGCY 1 cut(s) 24
BglI GCCNNNNNGGC 1 cut(s) 87
BglII AGATCT 2 cut(s) 460, 696
BisI GCNGC 7 cut(s) 79, 136, 174, 204, 220, 316, 897
BlsI GCNGC 7 cut(s) 80, 137, 175, 205, 221, 317, 898
Bme1390I CCNGG 3 cut(s) 365, 675, 739
BmeT110I CYCGRG 1 cut(s) 140
BmgBI CACGTC 1 cut(s) 193
BmiI GGNNCC 3 cut(s) 22, 130, 382
BmrFI CCNGG 3 cut(s) 365, 675, 739
BmsI GCATC 2 cut(s) 396, 796
BpiI GAAGAC 1 cut(s) 187
BplI GAGNNNNNCTC 4 cut(s) 113, 145, 134, 166
Bpu10I CCTNAGC 1 cut(s) 834
BpuEI CTTGAG 3 cut(s) 26, 452, 776
BpuMI CCSGG 1 cut(s) 675
BsaHI GRCGYC 3 cut(s) 21, 210, 300
BsaI GGTCTC 1 cut(s) 251
BsaJI CCNNGG 5 cut(s) 85, 444, 450, 673, 785
BsaWI WCCGGW 1 cut(s) 650
BsaXI ACNNNNNCTCC 2 cut(s) 137, 167
Bsc4I CCNNNNNNNGG 5 cut(s) 17, 253, 622, 657, 679
Bse118I RCCGGY 3 cut(s) 65, 206, 215
Bse1I ACTGG 1 cut(s) 239
BseBI CCWGG 2 cut(s) 365, 739
BseDI CCNNGG 5 cut(s) 85, 444, 450, 673, 785
BseGI GGATG 2 cut(s) 261, 515
BseLI CCNNNNNNNGG 5 cut(s) 17, 253, 622, 657, 679
BseMII CTCAG 1 cut(s) 825
BseNI ACTGG 1 cut(s) 239
BseRI GAGGAG 5 cut(s) 74, 142, 416, 773, 802
BseX3I CGGCCG 2 cut(s) 133, 217
BseXI GCAGC 1 cut(s) 883
BseYI CCCAGC 1 cut(s) 728
Bsh1236I CGCG 5 cut(s) 267, 315, 498, 535, 559
Bsh1285I CGRYCG 2 cut(s) 136, 220
BshFI GGCC 6 cut(s) 14, 81, 135, 219, 318, 449
BshNI GGYRCC 1 cut(s) 20
BsiEI CGRYCG 2 cut(s) 136, 220
BsiHKAI GWGCWC 2 cut(s) 327, 840
BsiHKCI CYCGRG 1 cut(s) 140
BsiSI CCGG 8 cut(s) 11, 66, 132, 207, 216, 384, 651, 675
BslFI GGGAC 2 cut(s) 229, 295
BslI CCNNNNNNNGG 5 cut(s) 17, 253, 622, 657, 679
BsmAI GTCTC 2 cut(s) 251, 861
BsmFI GGGAC 2 cut(s) 229, 295
BsmI GAATGC 1 cut(s) 510
BsnI GGCC 6 cut(s) 14, 81, 135, 219, 318, 449
Bso31I GGTCTC 1 cut(s) 251
BsoBI CYCGRG 1 cut(s) 140
Bsp1286I GDGCHC 2 cut(s) 327, 840
Bsp1407I TGTACA 1 cut(s) 708
Bsp143I GATC 5 cut(s) 31, 51, 425, 460, 696
Bsp19I CCATGG 1 cut(s) 450
BspANI GGCC 6 cut(s) 14, 81, 135, 219, 318, 449
BspCNI CTCAG 1 cut(s) 826
BspFNI CGCG 5 cut(s) 267, 315, 498, 535, 559
BspLI GGNNCC 3 cut(s) 22, 130, 382
BspPI GGATC 1 cut(s) 433
BspT107I GGYRCC 1 cut(s) 20
BspTNI GGTCTC 1 cut(s) 251
BsrBI CCGCTC 1 cut(s) 150
BsrFI RCCGGY 3 cut(s) 65, 206, 215
BsrGI TGTACA 1 cut(s) 708
BsrI ACTGG 1 cut(s) 239
BssAI RCCGGY 3 cut(s) 65, 206, 215
BssECI CCNNGG 5 cut(s) 85, 444, 450, 673, 785
BssMI GATC 5 cut(s) 31, 51, 425, 460, 696
BssNI GRCGYC 3 cut(s) 21, 210, 300
BssT1I CCWWGG 2 cut(s) 444, 450
Bst2UI CCWGG 2 cut(s) 365, 739
BstACI GRCGYC 3 cut(s) 21, 210, 300
BstAPI GCANNNNNTGC 1 cut(s) 96
BstAUI TGTACA 1 cut(s) 708
BstC8I GCNNGC 2 cut(s) 208, 765
BstDEI CTNAG 2 cut(s) 834, 900
BstDSI CCRYGG 1 cut(s) 450
BstF5I GGATG 2 cut(s) 261, 515
BstFNI CGCG 5 cut(s) 267, 315, 498, 535, 559
BstH2I RGCGCY 1 cut(s) 24
BstHHI GCGC 3 cut(s) 23, 269, 559
BstKTI GATC 5 cut(s) 34, 54, 428, 463, 699
BstMAI GTCTC 2 cut(s) 251, 861
BstMBI GATC 5 cut(s) 31, 51, 425, 460, 696
BstMCI CGRYCG 2 cut(s) 136, 220
BstNI CCWGG 2 cut(s) 365, 739
BstSCI CCNGG 3 cut(s) 363, 673, 737
BstUI CGCG 5 cut(s) 267, 315, 498, 535, 559
BstV1I GCAGC 1 cut(s) 883
BstV2I GAAGAC 1 cut(s) 187
BstX2I RGATCY 3 cut(s) 425, 460, 696
BstXI CCANNNNNNTGG 3 cut(s) 277, 451, 625
BstYI RGATCY 3 cut(s) 425, 460, 696
BstZI CGGCCG 2 cut(s) 133, 217
BsuRI GGCC 6 cut(s) 14, 81, 135, 219, 318, 449
BtgI CCRYGG 1 cut(s) 450
BtrI CACGTC 1 cut(s) 193
BtsCI GGATG 2 cut(s) 261, 515
Cac8I GCNNGC 2 cut(s) 208, 765
CfoI GCGC 3 cut(s) 23, 269, 559
Cfr10I RCCGGY 3 cut(s) 65, 206, 215
CseI GACGC 1 cut(s) 199
Csp6I GTAC 4 cut(s) 124, 358, 489, 709
CviAII CATG 2 cut(s) 451, 592
CviQI GTAC 4 cut(s) 124, 358, 489, 709
DdeI CTNAG 2 cut(s) 834, 900
DinI GGCGCC 1 cut(s) 22
DpnI GATC 5 cut(s) 33, 53, 427, 462, 698
DpnII GATC 5 cut(s) 31, 51, 425, 460, 696
DraIII CACNNNGTG 2 cut(s) 253, 345
EaeI YGGCCR 3 cut(s) 12, 133, 217
EagI CGGCCG 2 cut(s) 133, 217
Ecl136II GAGCTC 1 cut(s) 838
EclXI CGGCCG 2 cut(s) 133, 217
Eco130I CCWWGG 2 cut(s) 444, 450
Eco24I GRGCYC 1 cut(s) 840
Eco31I GGTCTC 1 cut(s) 251
Eco52I CGGCCG 2 cut(s) 133, 217
Eco53kI GAGCTC 1 cut(s) 838
Eco57I CTGAAG 1 cut(s) 396
Eco88I CYCGRG 1 cut(s) 140
EcoICRI GAGCTC 1 cut(s) 838
EcoRII CCWGG 2 cut(s) 363, 737
EcoT14I CCWWGG 2 cut(s) 444, 450
EcoT38I GRGCYC 1 cut(s) 840
EgeI GGCGCC 1 cut(s) 22
EheI GGCGCC 1 cut(s) 22
ErhI CCWWGG 2 cut(s) 444, 450
FaeI CATG 2 cut(s) 454, 595
FaiI YATR 4 cut(s) 97, 452, 564, 593
FaqI GGGAC 2 cut(s) 229, 295
FatI CATG 2 cut(s) 450, 591
FauI CCCGC 1 cut(s) 540
FblI GTMKAC 1 cut(s) 231
Fnu4HI GCNGC 7 cut(s) 79, 136, 174, 204, 220, 316, 897
FokI GGATG 2 cut(s) 248, 502
FriOI GRGCYC 1 cut(s) 840
Fsp4HI GCNGC 7 cut(s) 79, 136, 174, 204, 220, 316, 897
GlaI GCGC 3 cut(s) 22, 268, 558
GluI GCNGC 7 cut(s) 79, 136, 174, 204, 220, 316, 897
GsaI CCCAGC 1 cut(s) 732
HaeII RGCGCY 1 cut(s) 24
HaeIII GGCC 6 cut(s) 14, 81, 135, 219, 318, 449
HapII CCGG 8 cut(s) 11, 66, 132, 207, 216, 384, 651, 675
HgaI GACGC 1 cut(s) 199
HhaI GCGC 3 cut(s) 23, 269, 559
Hin1I GRCGYC 3 cut(s) 21, 210, 300
Hin1II CATG 2 cut(s) 454, 595
Hin6I GCGC 3 cut(s) 21, 267, 557
HinP1I GCGC 3 cut(s) 21, 267, 557
HincII GTYRAC 3 cut(s) 232, 288, 577
HindII GTYRAC 3 cut(s) 232, 288, 577
HinfI GANTC 4 cut(s) 242, 643, 654, 854
HpaII CCGG 8 cut(s) 11, 66, 132, 207, 216, 384, 651, 675
HphI GGTGA 6 cut(s) 205, 362, 538, 640, 658, 784
Hpy166II GTNNAC 5 cut(s) 232, 288, 311, 489, 577
Hpy188I TCNGA 3 cut(s) 425, 520, 786
Hpy188III TCNNGA 6 cut(s) 49, 142, 469, 658, 755, 865
Hpy8I GTNNAC 5 cut(s) 232, 288, 311, 489, 577
Hpy99I CGWCG 2 cut(s) 233, 302
HpyAV CCTTC 1 cut(s) 371
HpyCH4IV ACGT 5 cut(s) 192, 228, 273, 284, 300
HpyCH4V TGCA 2 cut(s) 348, 526
HpyF3I CTNAG 2 cut(s) 834, 900
HpySE526I ACGT 5 cut(s) 192, 228, 273, 284, 300
Hsp92I GRCGYC 3 cut(s) 21, 210, 300
Hsp92II CATG 2 cut(s) 454, 595
HspAI GCGC 3 cut(s) 21, 267, 557
KasI GGCGCC 1 cut(s) 20
KroI GCCGGC 1 cut(s) 206
KroNI GCCGGC 1 cut(s) 208
Kzo9I GATC 5 cut(s) 31, 51, 425, 460, 696
LmnI GCTCC 6 cut(s) 134, 155, 386, 760, 787, 789
Lsp1109I GCAGC 1 cut(s) 883
LweI GCATC 2 cut(s) 396, 796
MaeII ACGT 5 cut(s) 192, 228, 273, 284, 300
MaeIII GTNAC 1 cut(s) 211
MalI GATC 5 cut(s) 33, 53, 427, 462, 698
MbiI CCGCTC 1 cut(s) 150
MboI GATC 5 cut(s) 31, 51, 425, 460, 696
MboII GAAGA 4 cut(s) 187, 470, 754, 832
MflI RGATCY 3 cut(s) 425, 460, 696
MhlI GDGCHC 2 cut(s) 327, 840
MluCI AATT 2 cut(s) 472, 815
MluI ACGCGT 1 cut(s) 496
Mly113I GGCGCC 1 cut(s) 21
MlyI GAGTC 2 cut(s) 251, 863
MmeI TCCRAC 1 cut(s) 543
MreI CGCCGGCG 1 cut(s) 206
MroNI GCCGGC 1 cut(s) 206
MroXI GAANNNNTTC 3 cut(s) 746, 827, 872
MseI TTAA 1 cut(s) 330
MslI CAYNNNNRTG 1 cut(s) 623
MspI CCGG 8 cut(s) 11, 66, 132, 207, 216, 384, 651, 675
MspR9I CCNGG 3 cut(s) 365, 675, 739
Mva1269I GAATGC 1 cut(s) 510
MvaI CCWGG 2 cut(s) 365, 739
MvnI CGCG 5 cut(s) 267, 315, 498, 535, 559
NaeI GCCGGC 1 cut(s) 208
NarI GGCGCC 1 cut(s) 21
NciI CCSGG 1 cut(s) 675
NcoI CCATGG 1 cut(s) 450
NdeII GATC 5 cut(s) 31, 51, 425, 460, 696
NgoMIV GCCGGC 1 cut(s) 206
NlaIII CATG 2 cut(s) 454, 595
NlaIV GGNNCC 3 cut(s) 22, 130, 382
NmeAIII GCCGAG 1 cut(s) 66
NmuCI GTSAC 1 cut(s) 211
PaeR7I CTCGAG 1 cut(s) 140
PcsI WCGNNNNNNNCGW 2 cut(s) 207, 237
PctI GAATGC 1 cut(s) 510
PdiI GCCGGC 1 cut(s) 208
PdmI GAANNNNTTC 3 cut(s) 746, 827, 872
PfeI GAWTC 2 cut(s) 643, 654
PflMI CCANNNNNTGG 1 cut(s) 253
PkrI GCNGC 7 cut(s) 80, 137, 175, 205, 221, 317, 898
PleI GAGTC 2 cut(s) 250, 862
PluTI GGCGCC 1 cut(s) 24
PpsI GAGTC 2 cut(s) 250, 862
Psp124BI GAGCTC 1 cut(s) 840
Psp1406I AACGTT 1 cut(s) 273
Psp6I CCWGG 2 cut(s) 363, 737
PspFI CCCAGC 1 cut(s) 728
PspGI CCWGG 2 cut(s) 363, 737
PspN4I GGNNCC 3 cut(s) 22, 130, 382
PsuI RGATCY 3 cut(s) 425, 460, 696
RsaI GTAC 4 cut(s) 125, 359, 490, 710
RsaNI GTAC 4 cut(s) 124, 358, 489, 709
RseI CAYNNNNRTG 1 cut(s) 623
SacI GAGCTC 1 cut(s) 840
SalI GTCGAC 1 cut(s) 230
SaqAI TTAA 1 cut(s) 330
SatI GCNGC 7 cut(s) 79, 136, 174, 204, 220, 316, 897
Sau3AI GATC 5 cut(s) 31, 51, 425, 460, 696
SchI GAGTC 2 cut(s) 251, 863
ScrFI CCNGG 3 cut(s) 365, 675, 739
SduI GDGCHC 2 cut(s) 327, 840
SfaNI GCATC 2 cut(s) 396, 796
SfoI GGCGCC 1 cut(s) 22
Sfr274I CTCGAG 1 cut(s) 140
SgrAI CRCCGGYG 1 cut(s) 206
SlaI CTCGAG 1 cut(s) 140
SmiMI CAYNNNNRTG 1 cut(s) 623
SmlI CTYRAG 4 cut(s) 41, 140, 467, 755
SmoI CTYRAG 4 cut(s) 41, 140, 467, 755
Sse9I AATT 2 cut(s) 472, 815
SspDI GGCGCC 1 cut(s) 20
SstI GAGCTC 1 cut(s) 840
StyD4I CCNGG 3 cut(s) 363, 673, 737
StyI CCWWGG 2 cut(s) 444, 450
TaiI ACGT 5 cut(s) 195, 231, 276, 287, 303
TaqI TCGA 5 cut(s) 141, 159, 231, 354, 804
TasI AATT 2 cut(s) 472, 815
TatI WGTACW 2 cut(s) 488, 708
TauI GCSGC 6 cut(s) 81, 138, 176, 206, 222, 318
TfiI GAWTC 2 cut(s) 643, 654
Tru1I TTAA 1 cut(s) 330
Tru9I TTAA 1 cut(s) 330
TseFI GTSAC 1 cut(s) 211
TseI GCWGC 1 cut(s) 896
Tsp45I GTSAC 1 cut(s) 211
TspDTI ATGAA 4 cut(s) 409, 504, 532, 813
Van91I CCANNNNNTGG 1 cut(s) 253
XcmI CCANNNNNNNNNTGG 3 cut(s) 451, 598, 676
XhoI CTCGAG 1 cut(s) 140
XmiI GTMKAC 1 cut(s) 231
XmnI GAANNNNTTC 3 cut(s) 746, 827, 872
ZraI GACGTC 1 cut(s) 301
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.