FvH4_5g24801

Protein ROOT PRIMORDIUM DEFECTIVE

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb5
OG0013520
Physical Location & Seq
Reverse (-)
16137879 .. 16139048
1170 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_5g24801.t1

Sequence Viewer

Length: 1170 bp
ATGTATAAGAAACCCACGTTTTCTCGCTTTCACCAACTTCTCAGGACTTCTCAGCAAACAACCCCCTTGTGGGTCTTAGTAAGGCACAAACACAGTGGAGGACGAAGACCCAAGAAGAGAGTCTACCACAGAGACCCTGACCTTGACAAACCCATGGACTTGCGGAAGAAGCCTGCCTTGATTCTGGAGCTCAAGTCCATTATTCAGTCGCAGAAGCAGGGATTGGTGCTTCTCAGGGACCTCGAGAAAGAAGTTGGGTTTGTTCAGAAGTGGAATTTCATGGCTGTTATAGAGAGAAACCCTTCGATATTCTATGTTGGTGGTGGGAATAGAGTGCCCCCATTTGTTCAGCTCACTGAAAAAGCCGAAAGGGTTGCGAGGGAAGAAGCTGAAGCGAATCAGTTGATGGAACCCATTTTGGTTAGGAACCTAAGGAAGTTGTTAATGTTGTCGGTTGATTGCAGGGTTCCACTTGAGTCGATTGAGTTTGTTCAATGTGAGCTGGGTTTGCCGGATGATTTCAAGAAGTCATTGATTCCAAAGTACCCTGAATTTTTTTCGGTTAAGGATGTGAGTGGGAGAGCCTATCTTCATTTGGAGAATTGGGATTCTTCCCTAGCAGCCACAGCGCGTGAGGAACGATTAGCTAGTGATGGGATTGCAGCCTCTGATGGAGTGGGAAAGAATTTTAGAATATCGAAGGATGGTAATTTTCGAGGTCCACAAGCGTTTAGAATGAAGTTTCCTGCTGGTTTTAGGCCAAATGCAAGTTATCTTGAGCAACTTGAAAAGTGGCAGAAACTCGAATTCCCTTCTCCGTATTTGAATGCAAGGAGGTTTGACATTGCTGATACTAGAGCAAGGAAGCGAGTAGTGGCAGTGCTTCATGAGCTACTGAGTTTGACTATGGAGAAGAGGATGACATCTGCGCAAATGGAGGCATTTCATTCAGAGTATTTCTTACCTTCTAGATTGCTGCTTTGTTTGATAAAACATAATGGTATCTTTTACATAACTAATAAAGGTGCAAGGAGTACTGTTTTTCTTAAAGAAGCTTATGATGGATCAAATTTGATGAACAAGTGCCCCCTCTTGTTATTCAATGATAAATTTGCAGGACTTAGTGGTAAGAGAGAGATCAATTCATGTAATGTGATGCCTTCGTTATAG
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

390

Amino Acids

44.78

Weight (kDa)

9.74

Isoelectric Point (pI)

45.18

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 43 - 377 2.3e-101 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: OG0013520)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G79120 AT1G79120
fragaria_vesca FvH4_5g24801
malus_domestica MD05G1220600.v1.1 MD10G1203000.v1.1
prunus_persica Prupe.4G139300_v2.0.a1
pyrus_communis pycom05g20410 pycom10g17360
rosa_chinensis RchiOBHm_Chr7g0215141
rosa_laevigata RLG00000002690
rosa_multiflora Rmu_sc0005476.1_g000003
rosa_roxburghii Rroxscaffold_3G00244590
rosa_rugosa Rorug07G0150200
rosa_samantha Rh7BG278800 Rh7CG307000 Rh7DG290600 Rh7DG397500
rosa_wichuraiana Rw7G024490

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 930
AccI GTMKAC 1 cut(s) 123
AccII CGCG 1 cut(s) 631
AciI CCGC 1 cut(s) 163
AclWI GGATC 1 cut(s) 1072
AcsI RAATTY 6 cut(s) 274, 551, 685, 806, 1069, 1109
AcuI CTGAAG 1 cut(s) 411
AfaI GTAC 2 cut(s) 545, 1036
AfiI CCNNNNNNNGG 2 cut(s) 69, 70
AgsI TTSAA 5 cut(s) 494, 523, 788, 826, 1102
AjuI GAANNNNNNNTTGG 2 cut(s) 206, 238
AluBI AGCT 7 cut(s) 190, 352, 389, 502, 647, 892, 1055
AluI AGCT 7 cut(s) 190, 352, 389, 502, 647, 892, 1055
Alw21I GWGCWC 1 cut(s) 192
Alw26I GTCTC 1 cut(s) 126
AlwI GGATC 1 cut(s) 1072
AlwNI CAGNNNCTG 1 cut(s) 668
Ama87I CYCGRG 1 cut(s) 242
AoxI GGCC 1 cut(s) 758
ApeKI GCWGC 3 cut(s) 620, 662, 976
ApoI RAATTY 6 cut(s) 274, 551, 685, 806, 1069, 1109
Asp700I GAANNNNTTC 1 cut(s) 301
AspLEI GCGC 2 cut(s) 631, 931
AspS9I GGNCC 2 cut(s) 238, 719
AsuHPI GGTGA 1 cut(s) 23
AvaI CYCGRG 1 cut(s) 242
AvaII GGWCC 2 cut(s) 238, 719
AxyI CCTNAGG 1 cut(s) 431
BaeGI GKGCMC 2 cut(s) 339, 1088
BanII GRGCYC 1 cut(s) 192
BarI GAAGNNNNNNTAC 2 cut(s) 107, 139
BbsI GAAGAC 1 cut(s) 112
Bbv12I GWGCWC 1 cut(s) 192
BbvI GCAGC 3 cut(s) 632, 674, 963
BccI CCATC 5 cut(s) 400, 647, 665, 698, 1055
BcgI CGANNNNNNTGC 2 cut(s) 356, 390
BcoDI GTCTC 1 cut(s) 126
BfaI CTAG 4 cut(s) 617, 648, 855, 969
BisI GCNGC 3 cut(s) 621, 663, 977
BlsI GCNGC 3 cut(s) 622, 664, 978
BmcAI AGTACT 1 cut(s) 1036
Bme18I GGWCC 2 cut(s) 238, 719
BmeT110I CYCGRG 1 cut(s) 242
BmgT120I GGNCC 2 cut(s) 238, 719
BmiI GGNNCC 4 cut(s) 239, 411, 428, 468
BmsI GCATC 1 cut(s) 1146
BpiI GAAGAC 1 cut(s) 112
BpmI CTGGAG 1 cut(s) 206
BpuEI CTTGAG 3 cut(s) 176, 494, 797
BsaI GGTCTC 1 cut(s) 126
BsaJI CCNNGG 1 cut(s) 153
BsaXI ACNNNNNCTCC 2 cut(s) 179, 209
Bsc4I CCNNNNNNNGG 2 cut(s) 69, 70
Bse21I CCTNAGG 1 cut(s) 431
Bse3DI GCAATG 1 cut(s) 843
BseDI CCNNGG 1 cut(s) 153
BseGI GGATG 4 cut(s) 520, 574, 709, 924
BseLI CCNNNNNNNGG 2 cut(s) 69, 70
BseMI GCAATG 1 cut(s) 843
BseMII CTCAG 4 cut(s) 55, 65, 247, 887
BseSI GKGCMC 2 cut(s) 339, 1088
BseXI GCAGC 3 cut(s) 632, 674, 963
BseYI CCCAGC 1 cut(s) 502
Bsh1236I CGCG 1 cut(s) 631
BshFI GGCC 1 cut(s) 760
BsiHKAI GWGCWC 1 cut(s) 192
BsiHKCI CYCGRG 1 cut(s) 242
BsiSI CCGG 1 cut(s) 512
BslFI GGGAC 1 cut(s) 251
BslI CCNNNNNNNGG 2 cut(s) 69, 70
BsmAI GTCTC 1 cut(s) 126
BsmFI GGGAC 1 cut(s) 251
BsmI GAATGC 1 cut(s) 832
BsnI GGCC 1 cut(s) 760
Bso31I GGTCTC 1 cut(s) 126
BsoBI CYCGRG 1 cut(s) 242
Bsp1286I GDGCHC 3 cut(s) 192, 339, 1088
Bsp143I GATC 2 cut(s) 1064, 1137
Bsp19I CCATGG 1 cut(s) 153
BspACI CCGC 1 cut(s) 163
BspANI GGCC 1 cut(s) 760
BspCNI CTCAG 4 cut(s) 54, 64, 246, 888
BspFNI CGCG 1 cut(s) 631
BspHI TCATGA 1 cut(s) 886
BspLI GGNNCC 4 cut(s) 239, 411, 428, 468
BspPI GGATC 1 cut(s) 1072
BspTNI GGTCTC 1 cut(s) 126
BsrDI GCAATG 1 cut(s) 843
BssECI CCNNGG 1 cut(s) 153
BssMI GATC 2 cut(s) 1064, 1137
BssT1I CCWWGG 1 cut(s) 153
Bst4CI ACNGT 2 cut(s) 95, 1039
Bst6I CTCTTC 2 cut(s) 110, 908
BstC8I GCNNGC 1 cut(s) 174
BstDEI CTNAG 7 cut(s) 41, 51, 76, 233, 431, 896, 1121
BstDSI CCRYGG 1 cut(s) 153
BstF5I GGATG 4 cut(s) 520, 574, 709, 924
BstFNI CGCG 1 cut(s) 631
BstHHI GCGC 2 cut(s) 631, 931
BstKTI GATC 2 cut(s) 1067, 1140
BstMAI GTCTC 1 cut(s) 126
BstMBI GATC 2 cut(s) 1064, 1137
BstMWI GCNNNNNNNGC 4 cut(s) 169, 508, 626, 889
BstSLI GKGCMC 2 cut(s) 339, 1088
BstUI CGCG 1 cut(s) 631
BstV1I GCAGC 3 cut(s) 632, 674, 963
BstV2I GAAGAC 1 cut(s) 112
Bsu36I CCTNAGG 1 cut(s) 431
BsuRI GGCC 1 cut(s) 760
BtgI CCRYGG 1 cut(s) 153
BtsCI GGATG 4 cut(s) 520, 574, 709, 924
BtsI GCAGTG 1 cut(s) 885
BtsIMutI CAGTG 3 cut(s) 100, 354, 885
Cac8I GCNNGC 1 cut(s) 174
CaiI CAGNNNCTG 1 cut(s) 668
CciI TCATGA 1 cut(s) 886
CfoI GCGC 2 cut(s) 631, 931
Cfr13I GGNCC 2 cut(s) 238, 719
Csp6I GTAC 2 cut(s) 544, 1035
CspCI CAANNNNNGTGG 2 cut(s) 76, 111
CviAII CATG 4 cut(s) 154, 280, 887, 1146
CviQI GTAC 2 cut(s) 544, 1035
DdeI CTNAG 7 cut(s) 41, 51, 76, 233, 431, 896, 1121
DpnI GATC 2 cut(s) 1066, 1139
DpnII GATC 2 cut(s) 1064, 1137
Eam1104I CTCTTC 2 cut(s) 110, 908
EarI CTCTTC 2 cut(s) 110, 908
Ecl136II GAGCTC 1 cut(s) 190
Eco130I CCWWGG 1 cut(s) 153
Eco24I GRGCYC 1 cut(s) 192
Eco31I GGTCTC 1 cut(s) 126
Eco47I GGWCC 2 cut(s) 238, 719
Eco53kI GAGCTC 1 cut(s) 190
Eco57I CTGAAG 1 cut(s) 411
Eco81I CCTNAGG 1 cut(s) 431
Eco88I CYCGRG 1 cut(s) 242
EcoICRI GAGCTC 1 cut(s) 190
EcoO109I RGGNCCY 1 cut(s) 238
EcoRI GAATTC 1 cut(s) 806
EcoT14I CCWWGG 1 cut(s) 153
EcoT38I GRGCYC 1 cut(s) 192
ErhI CCWWGG 1 cut(s) 153
FaeI CATG 4 cut(s) 157, 283, 890, 1149
FalI AAGNNNNNCTT 2 cut(s) 161, 193
FaqI GGGAC 1 cut(s) 251
FatI CATG 4 cut(s) 153, 279, 886, 1145
FblI GTMKAC 1 cut(s) 123
Fnu4HI GCNGC 3 cut(s) 621, 663, 977
FokI GGATG 4 cut(s) 527, 581, 716, 931
FriOI GRGCYC 1 cut(s) 192
Fsp4HI GCNGC 3 cut(s) 621, 663, 977
FspBI CTAG 4 cut(s) 617, 648, 855, 969
FspI TGCGCA 1 cut(s) 930
GlaI GCGC 2 cut(s) 630, 930
GluI GCNGC 3 cut(s) 621, 663, 977
GsaI CCCAGC 1 cut(s) 506
GsuI CTGGAG 1 cut(s) 206
HaeIII GGCC 1 cut(s) 760
HapII CCGG 1 cut(s) 512
HhaI GCGC 2 cut(s) 631, 931
Hin1II CATG 4 cut(s) 157, 283, 890, 1149
Hin6I GCGC 2 cut(s) 629, 929
HinP1I GCGC 2 cut(s) 629, 929
HindIII AAGCTT 1 cut(s) 1053
HinfI GANTC 6 cut(s) 120, 181, 397, 476, 535, 608
HpaII CCGG 1 cut(s) 512
HphI GGTGA 1 cut(s) 23
Hpy166II GTNNAC 2 cut(s) 124, 722
Hpy188I TCNGA 3 cut(s) 267, 670, 952
Hpy188III TCNNGA 7 cut(s) 43, 185, 244, 523, 776, 887, 969
Hpy8I GTNNAC 2 cut(s) 124, 722
HpyAV CCTTC 5 cut(s) 312, 694, 822, 975, 1170
HpyCH4III ACNGT 2 cut(s) 95, 1039
HpyCH4IV ACGT 1 cut(s) 17
HpyCH4V TGCA 6 cut(s) 462, 662, 767, 830, 1028, 1115
HpyF10VI GCNNNNNNNGC 4 cut(s) 169, 508, 626, 889
HpyF3I CTNAG 7 cut(s) 41, 51, 76, 233, 431, 896, 1121
HpySE526I ACGT 1 cut(s) 17
Hsp92II CATG 4 cut(s) 157, 283, 890, 1149
HspAI GCGC 2 cut(s) 629, 929
Kzo9I GATC 2 cut(s) 1064, 1137
LmnI GCTCC 1 cut(s) 187
Lsp1109I GCAGC 3 cut(s) 632, 674, 963
LweI GCATC 1 cut(s) 1146
MaeI CTAG 4 cut(s) 617, 648, 855, 969
MaeII ACGT 1 cut(s) 17
MalI GATC 2 cut(s) 1066, 1139
MboI GATC 2 cut(s) 1064, 1137
MboII GAAGA 7 cut(s) 117, 127, 178, 395, 581, 603, 925
MhlI GDGCHC 3 cut(s) 192, 339, 1088
MluCI AATT 9 cut(s) 274, 551, 601, 685, 709, 806, 1069, 1109, 1141
MlyI GAGTC 2 cut(s) 129, 485
MroXI GAANNNNTTC 1 cut(s) 301
MseI TTAA 3 cut(s) 443, 564, 1047
MspI CCGG 1 cut(s) 512
Mva1269I GAATGC 1 cut(s) 832
MvnI CGCG 1 cut(s) 631
MwoI GCNNNNNNNGC 4 cut(s) 169, 508, 626, 889
NcoI CCATGG 1 cut(s) 153
NdeII GATC 2 cut(s) 1064, 1137
NlaIII CATG 4 cut(s) 157, 283, 890, 1149
NlaIV GGNNCC 4 cut(s) 239, 411, 428, 468
NsbI TGCGCA 1 cut(s) 930
PaeR7I CTCGAG 1 cut(s) 242
PagI TCATGA 1 cut(s) 886
PctI GAATGC 1 cut(s) 832
PdmI GAANNNNTTC 1 cut(s) 301
PfeI GAWTC 4 cut(s) 181, 397, 535, 608
PkrI GCNGC 3 cut(s) 622, 664, 978
PleI GAGTC 2 cut(s) 128, 484
PpsI GAGTC 2 cut(s) 128, 484
PpuMI RGGWCCY 1 cut(s) 238
Psp124BI GAGCTC 1 cut(s) 192
Psp5II RGGWCCY 1 cut(s) 238
PspFI CCCAGC 1 cut(s) 502
PspN4I GGNNCC 4 cut(s) 239, 411, 428, 468
PspPI GGNCC 2 cut(s) 238, 719
PspPPI RGGWCCY 1 cut(s) 238
PstNI CAGNNNCTG 1 cut(s) 668
RsaI GTAC 2 cut(s) 545, 1036
RsaNI GTAC 2 cut(s) 544, 1035
SacI GAGCTC 1 cut(s) 192
SaqAI TTAA 3 cut(s) 443, 564, 1047
SatI GCNGC 3 cut(s) 621, 663, 977
Sau3AI GATC 2 cut(s) 1064, 1137
Sau96I GGNCC 2 cut(s) 238, 719
ScaI AGTACT 1 cut(s) 1036
SchI GAGTC 2 cut(s) 129, 485
SduI GDGCHC 3 cut(s) 192, 339, 1088
SfaNI GCATC 1 cut(s) 1146
Sfr274I CTCGAG 1 cut(s) 242
SinI GGWCC 2 cut(s) 238, 719
SlaI CTCGAG 1 cut(s) 242
SmlI CTYRAG 4 cut(s) 191, 242, 473, 776
SmoI CTYRAG 4 cut(s) 191, 242, 473, 776
Sse9I AATT 9 cut(s) 274, 551, 601, 685, 709, 806, 1069, 1109, 1141
SsiI CCGC 1 cut(s) 163
SspMI CTAG 4 cut(s) 617, 648, 855, 969
SstI GAGCTC 1 cut(s) 192
StyI CCWWGG 1 cut(s) 153
TaaI ACNGT 2 cut(s) 95, 1039
TaiI ACGT 1 cut(s) 20
TaqI TCGA 6 cut(s) 243, 305, 479, 698, 715, 804
TasI AATT 9 cut(s) 274, 551, 601, 685, 709, 806, 1069, 1109, 1141
TatI WGTACW 1 cut(s) 1034
TfiI GAWTC 4 cut(s) 181, 397, 535, 608
Tru1I TTAA 3 cut(s) 443, 564, 1047
Tru9I TTAA 3 cut(s) 443, 564, 1047
TscAI CASTG 3 cut(s) 100, 361, 885
TseI GCWGC 3 cut(s) 620, 662, 976
TspDTI ATGAA 7 cut(s) 268, 581, 752, 875, 935, 1091, 1134
TspGWI ACGGA 1 cut(s) 807
TspRI CASTG 3 cut(s) 100, 361, 885
VpaK11BI GGWCC 2 cut(s) 238, 719
XapI RAATTY 6 cut(s) 274, 551, 685, 806, 1069, 1109
XbaI TCTAGA 1 cut(s) 968
XhoI CTCGAG 1 cut(s) 242
XmiI GTMKAC 1 cut(s) 123
XmnI GAANNNNTTC 1 cut(s) 301
XspI CTAG 4 cut(s) 617, 648, 855, 969
ZrmI AGTACT 1 cut(s) 1036
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.