FvH4_6g21580

protein ROOT PRIMORDIUM DEFECTIVE

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb6
OG0014471
Physical Location & Seq
Reverse (-)
15148006 .. 15149292
1287 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_6g21580.t1

Sequence Viewer

Length: 1287 bp
ATGAAGGCTTACCTCTTCTCCCTCCTAAAACCCCAAACCCTGTCTAAAGCCACCAAGCTCCTCCCTCACCAACACCACCAATGTCGCGGCATCATTGCCAAGGTCCGCCTGAAATGGGTCAAGAACCGAACCTTAGACCACATCATCGACACCGAGACCGATCTCAAAGCCGCCTCTCTCCTCAAGGACGCCATCAAGCGATCCCCAACTGGCTTCCTCACCGCGAAGTCCTTCGCCGATTGGCAGAAGCTTCTCGGCCTCACCGTCCCCGTTCTCCGCTTCATGCGCAGGTACCCTACTCTCTTTCACGAATTCCCACACGCCCGTTATGCCAACTTGCCTTGCTTTAAGTTAACGGACACAGCACTATTGCTAGATTCACAAGAACAGAACATACACCAAACCCATGAGAGTGACACTGTTGAGAGGCTTAGCAGGGTTCTTATGATGATGAAAACCAAGAGTTTGCCTCTGCAGTCTTTGTATCCTTTGAAATGGGATTTGGGTTTGCCTGATGGGTTTGAGAAAGTGTTGGTTCCTAAGTACCCGGATTGTTTTCGATTAGTTAAGGCCTCGGATGGGGTTACGAGGTTGAAGGTCATACATTGTCCTGATGAGTTTGCGGTTTCGGCATTGCAGAGGAATAAGGAGGGTGGTGATGTGGGGGATGAGTATAGGCAATTTAAGAGGGGACAGACTGTGTTGGCTTTCCCCATGAGTTTTCCAAGGGGTTATGGGGCGCAGAAGAAGGTGAGGGCATGGATGGAGGAGTTTCAGAAGTTGCCATACATTTCTCCCTATGAGGATTCTAGGCAAATTGATCCTAATAGTGACCTTATGGAGAAAAGGGTTGTTGGAGTGTTGCATGAGTTATTGAGCTTGACTATTCATAAGAAGACCAAGAGGAACTATGTGAGGATTATTAGAGAGGAGTTGAATCTTCCACATAAGTTTACAAGAATCTTTACAAGGTATCCCGGGATTTTCTATCTTTCGTTGAAGTGTAAAACAACCACGGTAGCACTCAGGGAAGGTTACCAACGAGGGAAGCTAGTGAACCCGCATCCACTTGCGCATTTGAGAGAGAAGTTTTATCATGTAATGAGAACAGGGCTTATTTATCGCAATAAAGGTGTGAATATGCTGTCTCAGCAAGATATGTTGCTTGACAATGTGGAGACTGAAAGTGGTCAAGACGACTATGAAGAGGAAGAGGTTGGAACAGGAGATGAATGCGATGAAGATGAAGAATCAGACTTGGATTCGGAAGAATATGATGAATACTGA
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

429

Amino Acids

49.79

Weight (kDa)

8.64

Isoelectric Point (pI)

42.58

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 40 - 371 1.9e-118 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: OG0014471)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G58520 AT3G58520
fragaria_vesca FvH4_6g21580
malus_domestica MD14G1051500.v1.1
prunus_persica Prupe.7G084500_v2.0.a1
pyrus_communis pycom14g04280
rosa_chinensis RchiOBHm_Chr3g0478831
rosa_laevigata RLG00000023622
rosa_multiflora Rmu_sc0004831.1_g000011 Rmu_sc0005751.1_g000005 Rmu_sc0037242.1_g000002
rosa_roxburghii Rroxscaffold_6G00403040
rosa_rugosa Rorug03G0168500
rosa_samantha Rh3BG252100 Rh3CG249000 Rh3DG245200
rosa_wichuraiana Rw3G019800

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 2 cut(s) 287, 1074
Acc36I ACCTGC 1 cut(s) 279
Acc65I GGTACC 1 cut(s) 291
AccB1I GGYRCC 1 cut(s) 291
AccII CGCG 2 cut(s) 87, 224
AciI CCGC 7 cut(s) 87, 106, 171, 222, 277, 623, 1061
AclWI GGATC 2 cut(s) 195, 815
AcsI RAATTY 1 cut(s) 311
AcyI GRCGYC 1 cut(s) 189
AfaI GTAC 2 cut(s) 293, 545
AfiI CCNNNNNNNGG 2 cut(s) 115, 579
AgsI TTSAA 4 cut(s) 493, 595, 937, 1000
AjuI GAANNNNNNNTTGG 2 cut(s) 485, 517
AluBI AGCT 4 cut(s) 58, 250, 879, 1051
AluI AGCT 4 cut(s) 58, 250, 879, 1051
Alw26I GTCTC 3 cut(s) 149, 1152, 1172
AlwI GGATC 2 cut(s) 195, 815
Ama87I CYCGRG 1 cut(s) 977
AoxI GGCC 2 cut(s) 256, 570
ApoI RAATTY 1 cut(s) 311
Asp700I GAANNNNTTC 1 cut(s) 230
Asp718I GGTACC 1 cut(s) 291
AspLEI GCGC 3 cut(s) 288, 742, 1075
AspS9I GGNCC 1 cut(s) 103
AsuC2I CCSGG 3 cut(s) 548, 978, 979
AsuHPI GGTGA 5 cut(s) 59, 211, 253, 668, 763
AvaI CYCGRG 1 cut(s) 977
AvaII GGWCC 1 cut(s) 103
BanI GGYRCC 1 cut(s) 291
BarI GAAGNNNNNNTAC 2 cut(s) 770, 802
BbsI GAAGAC 1 cut(s) 902
BccI CCATC 4 cut(s) 200, 509, 572, 757
BciVI GTATCC 2 cut(s) 495, 984
BcnI CCSGG 3 cut(s) 548, 978, 979
BcoDI GTCTC 3 cut(s) 149, 1152, 1172
BfaI CTAG 3 cut(s) 374, 810, 1052
BfmI CTRYAG 1 cut(s) 473
BfuAI ACCTGC 1 cut(s) 279
BfuI GTATCC 2 cut(s) 495, 984
BisI GCNGC 2 cut(s) 88, 171
BlpI GCTNAGC 1 cut(s) 431
BlsI GCNGC 2 cut(s) 89, 172
Bme1390I CCNGG 3 cut(s) 548, 978, 979
Bme18I GGWCC 1 cut(s) 103
BmeT110I CYCGRG 1 cut(s) 977
BmgT120I GGNCC 1 cut(s) 103
BmiI GGNNCC 2 cut(s) 293, 537
BmrFI CCNGG 3 cut(s) 548, 978, 979
BmsI GCATC 2 cut(s) 99, 1072
BpiI GAAGAC 1 cut(s) 902
BplI GAGNNNNNCTC 2 cut(s) 454, 486
Bpu1102I GCTNAGC 1 cut(s) 431
BpuEI CTTGAG 1 cut(s) 167
BpuMI CCSGG 3 cut(s) 548, 978, 979
BsaHI GRCGYC 1 cut(s) 189
BsaI GGTCTC 1 cut(s) 149
BsaJI CCNNGG 5 cut(s) 99, 573, 725, 977, 1014
BsaXI ACNNNNNCTCC 1 cut(s) 32
Bsc4I CCNNNNNNNGG 2 cut(s) 115, 579
Bse1I ACTGG 1 cut(s) 214
Bse3DI GCAATG 2 cut(s) 93, 632
BseDI CCNNGG 5 cut(s) 99, 573, 725, 977, 1014
BseGI GGATG 4 cut(s) 583, 673, 768, 1063
BseLI CCNNNNNNNGG 2 cut(s) 115, 579
BseMI GCAATG 2 cut(s) 93, 632
BseMII CTCAG 2 cut(s) 1039, 1163
BseNI ACTGG 1 cut(s) 214
BseRI GAGGAG 4 cut(s) 50, 170, 782, 944
Bsh1236I CGCG 2 cut(s) 87, 224
BshFI GGCC 2 cut(s) 258, 572
BshNI GGYRCC 1 cut(s) 291
BsiHKCI CYCGRG 1 cut(s) 977
BsiSI CCGG 2 cut(s) 548, 978
BslFI GGGAC 2 cut(s) 251, 705
BslI CCNNNNNNNGG 2 cut(s) 115, 579
BsmAI GTCTC 3 cut(s) 149, 1152, 1172
BsmFI GGGAC 2 cut(s) 251, 705
BsmI GAATGC 1 cut(s) 1238
BsnI GGCC 2 cut(s) 258, 572
Bso31I GGTCTC 1 cut(s) 149
BsoBI CYCGRG 1 cut(s) 977
Bsp143I GATC 3 cut(s) 160, 200, 820
Bsp1720I GCTNAGC 1 cut(s) 431
BspACI CCGC 7 cut(s) 87, 106, 171, 222, 277, 623, 1061
BspANI GGCC 2 cut(s) 258, 572
BspCNI CTCAG 2 cut(s) 1038, 1162
BspFNI CGCG 2 cut(s) 87, 224
BspLI GGNNCC 2 cut(s) 293, 537
BspMAI CTGCAG 1 cut(s) 477
BspMI ACCTGC 1 cut(s) 279
BspPI GGATC 2 cut(s) 195, 815
BspT107I GGYRCC 1 cut(s) 291
BspTNI GGTCTC 1 cut(s) 149
BsrDI GCAATG 2 cut(s) 93, 632
BsrI ACTGG 1 cut(s) 214
BssECI CCNNGG 5 cut(s) 99, 573, 725, 977, 1014
BssMI GATC 3 cut(s) 160, 200, 820
BssNI GRCGYC 1 cut(s) 189
BssT1I CCWWGG 2 cut(s) 99, 725
Bst4CI ACNGT 4 cut(s) 265, 421, 700, 1018
Bst6I CTCTTC 3 cut(s) 20, 1200, 1206
BstACI GRCGYC 1 cut(s) 189
BstDEI CTNAG 5 cut(s) 133, 431, 540, 1025, 1149
BstDSI CCRYGG 1 cut(s) 1014
BstEII GGTNACC 1 cut(s) 1034
BstF5I GGATG 4 cut(s) 583, 673, 768, 1063
BstFNI CGCG 2 cut(s) 87, 224
BstHHI GCGC 3 cut(s) 288, 742, 1075
BstKTI GATC 3 cut(s) 163, 203, 823
BstMAI GTCTC 3 cut(s) 149, 1152, 1172
BstMBI GATC 3 cut(s) 160, 200, 820
BstMWI GCNNNNNNNGC 4 cut(s) 285, 329, 629, 1150
BstPI GGTNACC 1 cut(s) 1034
BstSCI CCNGG 3 cut(s) 546, 976, 977
BstSFI CTRYAG 1 cut(s) 473
BstUI CGCG 2 cut(s) 87, 224
BstV2I GAAGAC 1 cut(s) 902
BsuI GTATCC 2 cut(s) 495, 984
BsuRI GGCC 2 cut(s) 258, 572
BtgI CCRYGG 1 cut(s) 1014
BtgZI GCGATG 1 cut(s) 1251
BtsCI GGATG 4 cut(s) 583, 673, 768, 1063
BtsIMutI CAGTG 1 cut(s) 417
BveI ACCTGC 1 cut(s) 279
CfoI GCGC 3 cut(s) 288, 742, 1075
Cfr13I GGNCC 1 cut(s) 103
Cfr9I CCCGGG 1 cut(s) 977
CseI GACGC 1 cut(s) 197
Csp6I GTAC 2 cut(s) 292, 544
CviAII CATG 6 cut(s) 283, 407, 715, 759, 866, 1097
CviQI GTAC 2 cut(s) 292, 544
DdeI CTNAG 5 cut(s) 133, 431, 540, 1025, 1149
DpnI GATC 3 cut(s) 162, 202, 822
DpnII GATC 3 cut(s) 160, 200, 820
Eam1104I CTCTTC 3 cut(s) 20, 1200, 1206
EarI CTCTTC 3 cut(s) 20, 1200, 1206
EciI GGCGGA 1 cut(s) 95
Eco130I CCWWGG 2 cut(s) 99, 725
Eco147I AGGCCT 1 cut(s) 572
Eco31I GGTCTC 1 cut(s) 149
Eco47I GGWCC 1 cut(s) 103
Eco88I CYCGRG 1 cut(s) 977
Eco91I GGTNACC 1 cut(s) 1034
EcoO65I GGTNACC 1 cut(s) 1034
EcoRI GAATTC 1 cut(s) 311
EcoT14I CCWWGG 2 cut(s) 99, 725
ErhI CCWWGG 2 cut(s) 99, 725
FaeI CATG 6 cut(s) 286, 410, 718, 762, 869, 1100
FaqI GGGAC 2 cut(s) 251, 705
FatI CATG 6 cut(s) 282, 406, 714, 758, 865, 1096
FauI CCCGC 1 cut(s) 1068
Fnu4HI GCNGC 2 cut(s) 88, 171
FokI GGATG 4 cut(s) 590, 680, 775, 1050
Fsp4HI GCNGC 2 cut(s) 88, 171
FspBI CTAG 3 cut(s) 374, 810, 1052
FspI TGCGCA 2 cut(s) 287, 1074
GlaI GCGC 3 cut(s) 287, 741, 1074
GluI GCNGC 2 cut(s) 88, 171
HaeIII GGCC 2 cut(s) 258, 572
HapII CCGG 2 cut(s) 548, 978
HgaI GACGC 1 cut(s) 197
HhaI GCGC 3 cut(s) 288, 742, 1075
Hin1I GRCGYC 1 cut(s) 189
Hin1II CATG 6 cut(s) 286, 410, 718, 762, 869, 1100
Hin6I GCGC 3 cut(s) 286, 740, 1073
HinP1I GCGC 3 cut(s) 286, 740, 1073
HincII GTYRAC 1 cut(s) 354
HindII GTYRAC 1 cut(s) 354
HindIII AAGCTT 1 cut(s) 248
HinfI GANTC 6 cut(s) 377, 806, 937, 960, 1250, 1262
HpaI GTTAAC 1 cut(s) 354
HpaII CCGG 2 cut(s) 548, 978
HphI GGTGA 5 cut(s) 59, 211, 253, 668, 763
Hpy166II GTNNAC 3 cut(s) 354, 954, 1057
Hpy188I TCNGA 4 cut(s) 577, 777, 1255, 1267
Hpy188III TCNNGA 4 cut(s) 121, 308, 611, 1193
Hpy8I GTNNAC 3 cut(s) 354, 954, 1057
HpyAV CCTTC 4 cut(s) 241, 589, 742, 1025
HpyCH4III ACNGT 4 cut(s) 265, 421, 700, 1018
HpyCH4V TGCA 3 cut(s) 475, 637, 865
HpyF10VI GCNNNNNNNGC 4 cut(s) 285, 329, 629, 1150
HpyF3I CTNAG 5 cut(s) 133, 431, 540, 1025, 1149
Hsp92I GRCGYC 1 cut(s) 189
Hsp92II CATG 6 cut(s) 286, 410, 718, 762, 869, 1100
HspAI GCGC 3 cut(s) 286, 740, 1073
KpnI GGTACC 1 cut(s) 295
KspAI GTTAAC 1 cut(s) 354
Kzo9I GATC 3 cut(s) 160, 200, 820
LmnI GCTCC 1 cut(s) 63
LweI GCATC 2 cut(s) 99, 1072
MaeI CTAG 3 cut(s) 374, 810, 1052
MaeIII GTNAC 4 cut(s) 413, 583, 830, 1034
MalI GATC 3 cut(s) 162, 202, 822
MboI GATC 3 cut(s) 160, 200, 820
MboII GAAGA 9 cut(s) 7, 757, 907, 932, 1217, 1223, 1253, 1259, 1280
MluCI AATT 3 cut(s) 311, 680, 816
MmeI TCCRAC 2 cut(s) 835, 1198
MroXI GAANNNNTTC 1 cut(s) 230
MseI TTAA 4 cut(s) 348, 353, 567, 684
MslI CAYNNNNRTG 1 cut(s) 411
MspI CCGG 2 cut(s) 548, 978
MspR9I CCNGG 3 cut(s) 548, 978, 979
Mva1269I GAATGC 1 cut(s) 1238
MvnI CGCG 2 cut(s) 87, 224
MwoI GCNNNNNNNGC 4 cut(s) 285, 329, 629, 1150
NciI CCSGG 3 cut(s) 548, 978, 979
NdeII GATC 3 cut(s) 160, 200, 820
NlaIII CATG 6 cut(s) 286, 410, 718, 762, 869, 1100
NlaIV GGNNCC 2 cut(s) 293, 537
NmeAIII GCCGAG 1 cut(s) 234
NmuCI GTSAC 2 cut(s) 413, 830
NsbI TGCGCA 2 cut(s) 287, 1074
PceI AGGCCT 1 cut(s) 572
PcsI WCGNNNNNNNCGW 1 cut(s) 261
PctI GAATGC 1 cut(s) 1238
PdmI GAANNNNTTC 1 cut(s) 230
PfeI GAWTC 6 cut(s) 377, 806, 937, 960, 1250, 1262
PkrI GCNGC 2 cut(s) 89, 172
PspEI GGTNACC 1 cut(s) 1034
PspN4I GGNNCC 2 cut(s) 293, 537
PspPI GGNCC 1 cut(s) 103
PsrI GAACNNNNNNTAC 2 cut(s) 378, 410
PstI CTGCAG 1 cut(s) 477
RsaI GTAC 2 cut(s) 293, 545
RsaNI GTAC 2 cut(s) 292, 544
RseI CAYNNNNRTG 1 cut(s) 411
SaqAI TTAA 4 cut(s) 348, 353, 567, 684
SatI GCNGC 2 cut(s) 88, 171
Sau3AI GATC 3 cut(s) 160, 200, 820
Sau96I GGNCC 1 cut(s) 103
ScrFI CCNGG 3 cut(s) 548, 978, 979
SfaNI GCATC 2 cut(s) 99, 1072
SfcI CTRYAG 1 cut(s) 473
SinI GGWCC 1 cut(s) 103
SmaI CCCGGG 1 cut(s) 979
SmiMI CAYNNNNRTG 1 cut(s) 411
SmlI CTYRAG 1 cut(s) 182
SmoI CTYRAG 1 cut(s) 182
Sse9I AATT 3 cut(s) 311, 680, 816
SseBI AGGCCT 1 cut(s) 572
SsiI CCGC 7 cut(s) 87, 106, 171, 222, 277, 623, 1061
SspMI CTAG 3 cut(s) 374, 810, 1052
StuI AGGCCT 1 cut(s) 572
StyD4I CCNGG 3 cut(s) 546, 976, 977
StyI CCWWGG 2 cut(s) 99, 725
TaaI ACNGT 4 cut(s) 265, 421, 700, 1018
TaqI TCGA 2 cut(s) 147, 559
TaqII GACCGA 1 cut(s) 173
TasI AATT 3 cut(s) 311, 680, 816
TauI GCSGC 2 cut(s) 90, 173
TfiI GAWTC 6 cut(s) 377, 806, 937, 960, 1250, 1262
Tru1I TTAA 4 cut(s) 348, 353, 567, 684
Tru9I TTAA 4 cut(s) 348, 353, 567, 684
TscAI CASTG 1 cut(s) 424
TseFI GTSAC 2 cut(s) 413, 830
Tsp45I GTSAC 2 cut(s) 413, 830
TspDTI ATGAA 8 cut(s) 17, 271, 467, 878, 1218, 1245, 1254, 1260
TspGWI ACGGA 1 cut(s) 371
TspMI CCCGGG 1 cut(s) 977
TspRI CASTG 1 cut(s) 424
VpaK11BI GGWCC 1 cut(s) 103
XapI RAATTY 1 cut(s) 311
XmaI CCCGGG 1 cut(s) 977
XmnI GAANNNNTTC 1 cut(s) 230
XspI CTAG 3 cut(s) 374, 810, 1052
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.