FvH4_2g13920

protein ROOT PRIMORDIUM DEFECTIVE

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb2
OG0014573
Physical Location & Seq
Forward (+)
12208747 .. 12210154
1408 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_2g13920.t1

Sequence Viewer

Length: 1245 bp
ATGCACATGAATCAACAAATGGCATTTTCATTGCATTCTAGAAACCCAAGAATTGTCCAAAGCTTTGCCCGGAACTTTTCACTGTGGTCAATGAAGAAGGACCCTTCCCTTGAATCGGCATTGTCTAGGAATCGCCGGTGGGTGGTGAACAATCAACTCAAGAACATCATCCTTAGGTGCCCTGGTCAGGTGGCAAAAGTGAGGTTCATTCAGAACAAGTTCAAGACTCTTGATCTCCAAGGGAAGGCTCTCAATTGGCTCAAGAAGTACCCCTGCTGCTTTCAAGTCTATCTGCAGGGCGACGAGTACTACTGCCACCTCACGAAACGGATGATGGCTTTGGTGGAAGCGGAGGAGTCTGTCAAAGATATGCAGGAGCCTGTGTTTGTGGAGAGATTAGCAAAGTTACTGATGATGAGCCGCAATCAGAGACTAAATGTTGTCAAGCTTAATGAACTGAAGCGGAATTTTGGTTTTCCGGATGACTATTTGCTTAGACTTGTGCCAAAGTATCCTGACATGTTTCGGGTTGTTAATTATAGCGGCCGAAGGAGTTCCATGGAGATTGAGCTGGTGGATTGGAATCCGGATTTAGTGGTTTCTGCCATTGAAGCTTCAGCTCAGAAGCAGGGAAGTGAGCCATGCTTCACTTGCTCATTGCCTTCAACTTGGGCCAAGTCATGGGAAAGATTTCATGAGTTTAATGCAACTCCTTATATTTCTCCGTACTTGGACACCAAAGGTTTAGTGGATGGATCAAAGGAGATGGAGAAGAGGACTGTCGGCTTGGTGCATGAGTTGTTGTCATTGACTCTATGGAAGAAAGCATCAATTATAAAGCTTGGACATTTTCAGAGGGAGTTTGTTTTGCCAGAGAGATTGAATGCTTTGCTGCTGAAGCACCCTGGCATATTTTATGTATCAAATAAGTATCAGATATATACTGTCCTTCTTAGAGAAGGCTATAATGGGCAAGAACTGGTTCATAAGGATCCGCTTGTTGTCATAAAAGAGAAGTTTGGGGAACTTATGCAAGATGGGCTTCATGAATATAACCGCAGGCGCCATTTAGTAAATCTAGAAAAGAAGAGAAACAAAGGAATGGTTTTGGGTAGATCAGATAAAGGCAAGGATTTGCCTGACCTTGATGAGCAGGGAGACAGAGGAAGTTTGTTTGATCCAGAAGAAAGAAAAAGGTTTTATAAAGTTCTGTTTGACGATGGCTGTGCAAGTCTGTGCCTTTAA
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
PORR

Protein Analysis

415

Amino Acids

48.44

Weight (kDa)

9.36

Isoelectric Point (pI)

47.21

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 32 - 347 6.4e-108 Plant organelle RNA recognition 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: OG0014573)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G31290 AT2G31290
fragaria_vesca FvH4_2g13920
malus_domestica MD05G1023500.v1.1
prunus_persica Prupe.8G028100_v2.0.a1 Prupe.8G028100_v2.0.a1
rosa_chinensis RchiOBHm_Chr6g0275671
rosa_laevigata RLG00000013448
rosa_multiflora Rmu_sc0016068.1_g000004 Rmu_sc0018708.1_g000008
rosa_roxburghii Rroxscaffold_7G00193040
rosa_rugosa Rorug06G0095500
rosa_samantha Rh6AG207400 Rh6BG210000 Rh6CG213400 Rh6DG203100
rosa_wichuraiana Rw6G018080

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 2 cut(s) 836, 1203
AccB1I GGYRCC 2 cut(s) 177, 1062
AccB7I CCANNNNNTGG 1 cut(s) 681
AccIII TCCGGA 2 cut(s) 478, 586
AciI CCGC 6 cut(s) 350, 421, 463, 543, 995, 1057
AclWI GGATC 4 cut(s) 763, 986, 999, 1172
AcoI YGGCCR 1 cut(s) 544
AcsI RAATTY 1 cut(s) 466
AcuI CTGAAG 3 cut(s) 479, 600, 917
AcyI GRCGYC 1 cut(s) 1063
AfaI GTAC 3 cut(s) 269, 308, 728
AfiI CCNNNNNNNGG 5 cut(s) 115, 142, 187, 244, 681
AflIII ACRYGT 1 cut(s) 519
AgsI TTSAA 6 cut(s) 113, 223, 284, 611, 666, 883
AjnI CCWGG 2 cut(s) 181, 904
AluBI AGCT 6 cut(s) 63, 448, 571, 614, 620, 841
AluI AGCT 6 cut(s) 63, 448, 571, 614, 620, 841
Alw26I GTCTC 2 cut(s) 424, 1152
AlwI GGATC 4 cut(s) 763, 986, 999, 1172
Aor13HI TCCGGA 2 cut(s) 478, 586
AoxI GGCC 2 cut(s) 544, 672
ApeKI GCWGC 2 cut(s) 276, 892
ApoI RAATTY 1 cut(s) 466
Asp700I GAANNNNTTC 4 cut(s) 218, 553, 690, 981
AspLEI GCGC 1 cut(s) 1065
AspS9I GGNCC 2 cut(s) 100, 672
AsuC2I CCSGG 1 cut(s) 70
AsuHPI GGTGA 1 cut(s) 157
AvaII GGWCC 1 cut(s) 100
AxyI CCTNAGG 1 cut(s) 173
BaeGI GKGCMC 1 cut(s) 182
BamHI GGATCC 1 cut(s) 991
BanI GGYRCC 2 cut(s) 177, 1062
BbvI GCAGC 2 cut(s) 263, 879
BccI CCATC 5 cut(s) 328, 746, 760, 1031, 1214
BcgI CGANNNNNNTGC 2 cut(s) 1208, 1242
BciT130I CCWGG 2 cut(s) 183, 906
BciVI GTATCC 1 cut(s) 522
BcnI CCSGG 1 cut(s) 70
BcoDI GTCTC 2 cut(s) 424, 1152
BfaI CTAG 3 cut(s) 39, 126, 1079
BfmI CTRYAG 1 cut(s) 293
BfoI RGCGCY 1 cut(s) 1066
BfuI GTATCC 1 cut(s) 522
BisI GCNGC 4 cut(s) 277, 421, 544, 893
BlsI GCNGC 4 cut(s) 278, 422, 545, 894
BmcAI AGTACT 1 cut(s) 308
Bme1390I CCNGG 3 cut(s) 70, 183, 906
Bme18I GGWCC 1 cut(s) 100
BmgT120I GGNCC 2 cut(s) 100, 672
BmiI GGNNCC 5 cut(s) 102, 179, 378, 993, 1064
BmrFI CCNGG 3 cut(s) 70, 183, 906
BmsI GCATC 1 cut(s) 836
BpuEI CTTGAG 2 cut(s) 143, 245
BpuMI CCSGG 1 cut(s) 70
BsaBI GATNNNNATC 1 cut(s) 582
BsaHI GRCGYC 1 cut(s) 1063
BsaJI CCNNGG 4 cut(s) 181, 238, 558, 904
BsaWI WCCGGW 2 cut(s) 478, 586
BsaXI ACNNNNNCTCC 2 cut(s) 368, 398
Bsc4I CCNNNNNNNGG 5 cut(s) 115, 142, 187, 244, 681
Bse118I RCCGGY 1 cut(s) 135
Bse1I ACTGG 1 cut(s) 984
Bse21I CCTNAGG 1 cut(s) 173
Bse3DI GCAATG 2 cut(s) 29, 656
Bse8I GATNNNNATC 1 cut(s) 582
BseAI TCCGGA 2 cut(s) 478, 586
BseBI CCWGG 2 cut(s) 183, 906
BseDI CCNNGG 4 cut(s) 181, 238, 558, 904
BseGI GGATG 4 cut(s) 168, 336, 487, 757
BseJI GATNNNNATC 1 cut(s) 582
BseLI CCNNNNNNNGG 5 cut(s) 115, 142, 187, 244, 681
BseMI GCAATG 2 cut(s) 29, 656
BseMII CTCAG 1 cut(s) 635
BseNI ACTGG 1 cut(s) 984
BseRI GAGGAG 1 cut(s) 368
BseSI GKGCMC 1 cut(s) 182
BseX3I CGGCCG 1 cut(s) 544
BseXI GCAGC 2 cut(s) 263, 879
Bsh1285I CGRYCG 1 cut(s) 547
BshFI GGCC 2 cut(s) 546, 674
BshNI GGYRCC 2 cut(s) 177, 1062
BsiEI CGRYCG 1 cut(s) 547
BsiSI CCGG 4 cut(s) 70, 136, 479, 587
BslI CCNNNNNNNGG 5 cut(s) 115, 142, 187, 244, 681
BsmAI GTCTC 2 cut(s) 424, 1152
BsmI GAATGC 2 cut(s) 34, 889
BsnI GGCC 2 cut(s) 546, 674
Bsp1286I GDGCHC 1 cut(s) 182
Bsp13I TCCGGA 2 cut(s) 478, 586
Bsp143I GATC 5 cut(s) 232, 755, 991, 1115, 1177
Bsp19I CCATGG 1 cut(s) 558
BspACI CCGC 6 cut(s) 350, 421, 463, 543, 995, 1057
BspANI GGCC 2 cut(s) 546, 674
BspCNI CTCAG 1 cut(s) 634
BspEI TCCGGA 2 cut(s) 478, 586
BspHI TCATGA 2 cut(s) 694, 1045
BspLI GGNNCC 5 cut(s) 102, 179, 378, 993, 1064
BspMAI CTGCAG 1 cut(s) 297
BspPI GGATC 4 cut(s) 763, 986, 999, 1172
BspT107I GGYRCC 2 cut(s) 177, 1062
BsrDI GCAATG 2 cut(s) 29, 656
BsrFI RCCGGY 1 cut(s) 135
BsrI ACTGG 1 cut(s) 984
BssAI RCCGGY 1 cut(s) 135
BssECI CCNNGG 4 cut(s) 181, 238, 558, 904
BssMI GATC 5 cut(s) 232, 755, 991, 1115, 1177
BssNI GRCGYC 1 cut(s) 1063
BssT1I CCWWGG 2 cut(s) 238, 558
Bst2UI CCWGG 2 cut(s) 183, 906
Bst4CI ACNGT 3 cut(s) 84, 781, 946
Bst6I CTCTTC 2 cut(s) 767, 1082
BstACI GRCGYC 1 cut(s) 1063
BstC8I GCNNGC 1 cut(s) 1061
BstDEI CTNAG 4 cut(s) 173, 494, 621, 953
BstDSI CCRYGG 1 cut(s) 558
BstF5I GGATG 4 cut(s) 168, 336, 487, 757
BstH2I RGCGCY 1 cut(s) 1066
BstHHI GCGC 1 cut(s) 1065
BstKTI GATC 5 cut(s) 235, 758, 994, 1118, 1180
BstMAI GTCTC 2 cut(s) 424, 1152
BstMBI GATC 5 cut(s) 232, 755, 991, 1115, 1177
BstMCI CGRYCG 1 cut(s) 547
BstMWI GCNNNNNNNGC 4 cut(s) 611, 651, 898, 1039
BstNI CCWGG 2 cut(s) 183, 906
BstNSI RCATGY 1 cut(s) 523
BstSCI CCNGG 3 cut(s) 68, 181, 904
BstSFI CTRYAG 1 cut(s) 293
BstSLI GKGCMC 1 cut(s) 182
BstV1I GCAGC 2 cut(s) 263, 879
BstX2I RGATCY 1 cut(s) 991
BstYI RGATCY 1 cut(s) 991
BstZI CGGCCG 1 cut(s) 544
Bsu36I CCTNAGG 1 cut(s) 173
BsuI GTATCC 1 cut(s) 522
BsuRI GGCC 2 cut(s) 546, 674
BtgI CCRYGG 1 cut(s) 558
BtsCI GGATG 4 cut(s) 168, 336, 487, 757
BtsIMutI CAGTG 1 cut(s) 80
Cac8I GCNNGC 1 cut(s) 1061
CciI TCATGA 2 cut(s) 694, 1045
CfoI GCGC 1 cut(s) 1065
Cfr10I RCCGGY 1 cut(s) 135
Cfr13I GGNCC 2 cut(s) 100, 672
Csp6I GTAC 3 cut(s) 268, 307, 727
CviAII CATG 8 cut(s) 7, 520, 559, 642, 681, 695, 794, 1046
CviQI GTAC 3 cut(s) 268, 307, 727
DdeI CTNAG 4 cut(s) 173, 494, 621, 953
DinI GGCGCC 1 cut(s) 1064
DpnI GATC 5 cut(s) 234, 757, 993, 1117, 1179
DpnII GATC 5 cut(s) 232, 755, 991, 1115, 1177
EaeI YGGCCR 1 cut(s) 544
EagI CGGCCG 1 cut(s) 544
Eam1104I CTCTTC 2 cut(s) 767, 1082
EarI CTCTTC 2 cut(s) 767, 1082
EclXI CGGCCG 1 cut(s) 544
Eco130I CCWWGG 2 cut(s) 238, 558
Eco47I GGWCC 1 cut(s) 100
Eco52I CGGCCG 1 cut(s) 544
Eco57I CTGAAG 3 cut(s) 479, 600, 917
Eco81I CCTNAGG 1 cut(s) 173
EcoO109I RGGNCCY 1 cut(s) 100
EcoRII CCWGG 2 cut(s) 181, 904
EcoT14I CCWWGG 2 cut(s) 238, 558
EgeI GGCGCC 1 cut(s) 1064
EheI GGCGCC 1 cut(s) 1064
ErhI CCWWGG 2 cut(s) 238, 558
FaeI CATG 8 cut(s) 10, 523, 562, 645, 684, 698, 797, 1049
FalI AAGNNNNNCTT 2 cut(s) 1026, 1058
FatI CATG 8 cut(s) 6, 519, 558, 641, 680, 694, 793, 1045
Fnu4HI GCNGC 4 cut(s) 277, 421, 544, 893
FokI GGATG 4 cut(s) 155, 343, 494, 764
Fsp4HI GCNGC 4 cut(s) 277, 421, 544, 893
FspBI CTAG 3 cut(s) 39, 126, 1079
GlaI GCGC 1 cut(s) 1064
GluI GCNGC 4 cut(s) 277, 421, 544, 893
HaeII RGCGCY 1 cut(s) 1066
HaeIII GGCC 2 cut(s) 546, 674
HapII CCGG 4 cut(s) 70, 136, 479, 587
HhaI GCGC 1 cut(s) 1065
Hin1I GRCGYC 1 cut(s) 1063
Hin1II CATG 8 cut(s) 10, 523, 562, 645, 684, 698, 797, 1049
Hin6I GCGC 1 cut(s) 1063
HinP1I GCGC 1 cut(s) 1063
HindIII AAGCTT 4 cut(s) 61, 446, 612, 839
HinfI GANTC 7 cut(s) 10, 113, 130, 226, 356, 583, 811
HpaII CCGG 4 cut(s) 70, 136, 479, 587
HphI GGTGA 1 cut(s) 157
Hpy166II GTNNAC 1 cut(s) 148
Hpy188I TCNGA 6 cut(s) 213, 429, 624, 855, 936, 1120
Hpy8I GTNNAC 1 cut(s) 148
Hpy99I CGWCG 1 cut(s) 305
HpyAV CCTTC 7 cut(s) 91, 114, 238, 543, 672, 953, 959
HpyCH4III ACNGT 3 cut(s) 84, 781, 946
HpyCH4V TGCA 8 cut(s) 4, 34, 295, 373, 707, 793, 1033, 1229
HpyF10VI GCNNNNNNNGC 4 cut(s) 611, 651, 898, 1039
HpyF3I CTNAG 4 cut(s) 173, 494, 621, 953
Hsp92I GRCGYC 1 cut(s) 1063
Hsp92II CATG 8 cut(s) 10, 523, 562, 645, 684, 698, 797, 1049
HspAI GCGC 1 cut(s) 1063
KasI GGCGCC 1 cut(s) 1062
Kpn2I TCCGGA 2 cut(s) 478, 586
Kzo9I GATC 5 cut(s) 232, 755, 991, 1115, 1177
LmnI GCTCC 1 cut(s) 376
Lsp1109I GCAGC 2 cut(s) 263, 879
LweI GCATC 1 cut(s) 836
MaeI CTAG 3 cut(s) 39, 126, 1079
MaeIII GTNAC 1 cut(s) 405
MalI GATC 5 cut(s) 234, 757, 993, 1117, 1179
MboI GATC 5 cut(s) 232, 755, 991, 1115, 1177
MboII GAAGA 5 cut(s) 106, 784, 832, 1099, 1196
MfeI CAATTG 1 cut(s) 253
MflI RGATCY 1 cut(s) 991
MhlI GDGCHC 1 cut(s) 182
MluCI AATT 5 cut(s) 51, 253, 466, 535, 831
Mly113I GGCGCC 1 cut(s) 1063
MlyI GAGTC 3 cut(s) 220, 365, 805
MnlI CCTC 6 cut(s) 195, 329, 346, 768, 849, 1157
MroI TCCGGA 2 cut(s) 478, 586
MroXI GAANNNNTTC 4 cut(s) 218, 553, 690, 981
MseI TTAA 4 cut(s) 450, 534, 702, 1243
MspI CCGG 4 cut(s) 70, 136, 479, 587
MspR9I CCNGG 3 cut(s) 70, 183, 906
MunI CAATTG 1 cut(s) 253
Mva1269I GAATGC 2 cut(s) 34, 889
MvaI CCWGG 2 cut(s) 183, 906
MwoI GCNNNNNNNGC 4 cut(s) 611, 651, 898, 1039
NarI GGCGCC 1 cut(s) 1063
NciI CCSGG 1 cut(s) 70
NcoI CCATGG 1 cut(s) 558
NdeII GATC 5 cut(s) 232, 755, 991, 1115, 1177
NlaIII CATG 8 cut(s) 10, 523, 562, 645, 684, 698, 797, 1049
NlaIV GGNNCC 5 cut(s) 102, 179, 378, 993, 1064
NspI RCATGY 1 cut(s) 523
PagI TCATGA 2 cut(s) 694, 1045
PciI ACATGT 1 cut(s) 519
PctI GAATGC 2 cut(s) 34, 889
PdmI GAANNNNTTC 4 cut(s) 218, 553, 690, 981
PfeI GAWTC 4 cut(s) 10, 113, 130, 583
PflMI CCANNNNNTGG 1 cut(s) 681
PkrI GCNGC 4 cut(s) 278, 422, 545, 894
PleI GAGTC 3 cut(s) 220, 364, 805
PluTI GGCGCC 1 cut(s) 1066
PpsI GAGTC 3 cut(s) 220, 364, 805
PpuMI RGGWCCY 1 cut(s) 100
PscI ACATGT 1 cut(s) 519
PsiI TTATAA 2 cut(s) 836, 1203
Psp5II RGGWCCY 1 cut(s) 100
Psp6I CCWGG 2 cut(s) 181, 904
PspGI CCWGG 2 cut(s) 181, 904
PspN4I GGNNCC 5 cut(s) 102, 179, 378, 993, 1064
PspPI GGNCC 2 cut(s) 100, 672
PspPPI RGGWCCY 1 cut(s) 100
PstI CTGCAG 1 cut(s) 297
PsuI RGATCY 1 cut(s) 991
RsaI GTAC 3 cut(s) 269, 308, 728
RsaNI GTAC 3 cut(s) 268, 307, 727
SaqAI TTAA 4 cut(s) 450, 534, 702, 1243
SatI GCNGC 4 cut(s) 277, 421, 544, 893
Sau3AI GATC 5 cut(s) 232, 755, 991, 1115, 1177
Sau96I GGNCC 2 cut(s) 100, 672
ScaI AGTACT 1 cut(s) 308
SchI GAGTC 3 cut(s) 220, 365, 805
ScrFI CCNGG 3 cut(s) 70, 183, 906
SduI GDGCHC 1 cut(s) 182
SfaNI GCATC 1 cut(s) 836
SfcI CTRYAG 1 cut(s) 293
SfoI GGCGCC 1 cut(s) 1064
SgrAI CRCCGGYG 1 cut(s) 135
SinI GGWCC 1 cut(s) 100
SmlI CTYRAG 2 cut(s) 158, 260
SmoI CTYRAG 2 cut(s) 158, 260
Sse9I AATT 5 cut(s) 51, 253, 466, 535, 831
SsiI CCGC 6 cut(s) 350, 421, 463, 543, 995, 1057
SspDI GGCGCC 1 cut(s) 1062
SspMI CTAG 3 cut(s) 39, 126, 1079
StyD4I CCNGG 3 cut(s) 68, 181, 904
StyI CCWWGG 2 cut(s) 238, 558
TaaI ACNGT 3 cut(s) 84, 781, 946
TasI AATT 5 cut(s) 51, 253, 466, 535, 831
TatI WGTACW 1 cut(s) 306
TauI GCSGC 2 cut(s) 423, 546
TfiI GAWTC 4 cut(s) 10, 113, 130, 583
Tru1I TTAA 4 cut(s) 450, 534, 702, 1243
Tru9I TTAA 4 cut(s) 450, 534, 702, 1243
TscAI CASTG 1 cut(s) 87
TseI GCWGC 2 cut(s) 276, 892
TspDTI ATGAA 9 cut(s) 18, 23, 107, 196, 468, 683, 974, 1034, 1062
TspGWI ACGGA 2 cut(s) 343, 714
TspRI CASTG 1 cut(s) 87
Van91I CCANNNNNTGG 1 cut(s) 681
VpaK11BI GGWCC 1 cut(s) 100
XapI RAATTY 1 cut(s) 466
XbaI TCTAGA 2 cut(s) 38, 1078
XceI RCATGY 1 cut(s) 523
XcmI CCANNNNNNNNNTGG 1 cut(s) 745
XmnI GAANNNNTTC 4 cut(s) 218, 553, 690, 981
XspI CTAG 3 cut(s) 39, 126, 1079
ZrmI AGTACT 1 cut(s) 308
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.