FvH4_5g20810

poly(U)-specific endoribonuclease-B-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb5
OG0012207
Physical Location & Seq
Reverse (-)
12361692 .. 12366098
4407 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_5g20810.t2

Sequence Viewer

Length: 1131 bp
ATGGAGGGTCTGATAAAGGGTCTGATCGACGTGGCACTCGGTCACGGCGATCACAAGGAGGAAGACTCGGCTGCCGGCGACCGCGATGAGTGCTCCAGATCCACTTGGTCTGAGGTGGTGTCTGGGGAGCAGGATAATGACAGTGATCGCCCACACCAGACCCCCTCCCGCTGGAATAGACAGGAAGAGAGTAACTTTGGGCGTCAAGATTGGGGCAATGTGAGTTCCGAACCTCCAAGGCGACCCCAAAAGAGTACATATGAGAGATATGAGAACAATGAAGATGGTCGGCCAATTCGTTTTAAACAAAACTACTCCAGCAGAAAGGAGGAAGCGGAAGAAGGAAACAATGATGGTTGGGAGACTGTGGGCAAGAAGCCTCCAAGGCAGTCACACAAGGTTCAGAAGGACCAGTGGCAGGGATTTAAACGGCCTGCCAGTGAGCAACAATACTCTGATGAGGTTGAAGGAGGTGCTAACATAGAACCTTCTGAAGACGAGCTTTCTGATCTGTCAAAAGCTTGCAATAGATTCTGGGAACTTGATTCAAACCGTTTAGTGCCTGGGAAGGACTACGAAATTGACTGTGGTGATGGGAAGAAGGTTTACCATAGGGGAGATTTAGCAGAAGGAAACTTATTTACCTGGCTGAGTGAAGATGTGTTCAGAAGGCCTACTTTTTCTCGTTTCTGTTCTCTTTTAGATAATTACAACCCAAATGAAGGGTCCAGAGAAGTTATCACATCTGCGGAGAAACAAGAGCAAGCTGCTTTCATGGAAGAAATCAGCAGAACTGCTCCCATTAAGTATCTCCACAGATATCTCTCACGCAAGGGCATTGTATCTGACAACTATCAAGAGTTTAAAAGAACACTGACTGCTCTTTGGTTTGATCTTTATGGCCGTGGTGGCACTTCTGGCTGCTCCTCTGCTTTTGAACATGTTTTTGTGGGAGAAATTAAGCAGCGTGGTGAAGAATCGGTTTCTGGCTTCCACAATTGGATTCAGTTCTACCTTGAAGAAGCAAAAGGAACAGTTGACTATCAAGGTTATATATTCCCTCGTCGACGTGGGGAAGTTACTCTGAAACTCAGTTGCTTACAATCCAGTTCGAATGGAATGGTGTCCTGA
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
XendoU

Protein Analysis

377

Amino Acids

43.14

Weight (kDa)

5.18

Isoelectric Point (pI)

58.23

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
XendoU PF09412 170 - 433 1.2e-93 Endoribonuclease XendoU
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: OG0012207)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G17100
fragaria_vesca FvH4_5g20810 FvH4_5g20810
malus_domestica MD04G1057000.v1.1
prunus_persica Prupe.5G050800_v2.0.a1 Prupe.5G050800_v2.0.a1
pyrus_communis pycom04g05070
rosa_chinensis RchiOBHm_Chr7g0207741
rosa_laevigata RLG00000003291
rosa_multiflora Rmu_sc0005968.1_g000004 Rmu_sc0007645.1_g000005
rosa_roxburghii Rroxscaffold_3G00251190
rosa_rugosa Rorug07G0099300 Rorug07G0099400
rosa_samantha Rh7AG232500 Rh7BG227900 Rh7CG246200 Rh7DG238700
rosa_wichuraiana Rw7G019910

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 1066
AccII CGCG 1 cut(s) 84
AciI CCGC 4 cut(s) 82, 169, 335, 749
AclWI GGATC 1 cut(s) 93
AcoI YGGCCR 2 cut(s) 290, 901
AcuI CTGAAG 1 cut(s) 513
AcyI GRCGYC 1 cut(s) 202
AfaI GTAC 1 cut(s) 256
AfiI CCNNNNNNNGG 3 cut(s) 171, 418, 722
AflIII ACRYGT 1 cut(s) 940
AgsI TTSAA 4 cut(s) 467, 549, 938, 1019
AjiI CACGTC 2 cut(s) 31, 1070
AjnI CCWGG 2 cut(s) 562, 644
AluBI AGCT 3 cut(s) 502, 521, 767
AluI AGCT 3 cut(s) 502, 521, 767
Alw21I GWGCWC 1 cut(s) 95
Alw26I GTCTC 1 cut(s) 356
AlwI GGATC 1 cut(s) 93
AoxI GGCC 4 cut(s) 290, 431, 671, 901
ApeKI GCWGC 4 cut(s) 71, 767, 921, 964
ArsI GACNNNNNNTTYG 2 cut(s) 710, 742
AspS9I GGNCC 2 cut(s) 409, 726
AsuHPI GGTGA 2 cut(s) 602, 983
AsuII TTCGAA 1 cut(s) 1112
AvaII GGWCC 2 cut(s) 409, 726
BarI GAAGNNNNNNTAC 2 cut(s) 590, 622
BbsI GAAGAC 2 cut(s) 69, 501
Bbv12I GWGCWC 1 cut(s) 95
BbvI GCAGC 4 cut(s) 58, 754, 908, 976
BccI CCATC 3 cut(s) 278, 347, 587
BceAI ACGGC 3 cut(s) 61, 446, 888
BciT130I CCWGG 2 cut(s) 564, 646
BcoDI GTCTC 1 cut(s) 356
BglI GCCNNNNNGGC 2 cut(s) 385, 909
BisI GCNGC 4 cut(s) 72, 768, 922, 965
BlsI GCNGC 4 cut(s) 73, 769, 923, 966
Bme1390I CCNGG 2 cut(s) 564, 646
Bme18I GGWCC 2 cut(s) 409, 726
BmgBI CACGTC 2 cut(s) 31, 1070
BmgT120I GGNCC 2 cut(s) 409, 726
BmiI GGNNCC 1 cut(s) 727
BmrFI CCNGG 2 cut(s) 564, 646
BpiI GAAGAC 2 cut(s) 69, 501
BplI GAGNNNNNCTC 2 cut(s) 50, 82
BpmI CTGGAG 2 cut(s) 79, 301
Bpu14I TTCGAA 1 cut(s) 1112
BsaHI GRCGYC 1 cut(s) 202
BsaJI CCNNGG 4 cut(s) 236, 383, 563, 904
Bsc4I CCNNNNNNNGG 3 cut(s) 171, 418, 722
Bse118I RCCGGY 1 cut(s) 74
Bse1I ACTGG 3 cut(s) 412, 438, 1107
Bse3DI GCAATG 1 cut(s) 223
BseBI CCWGG 2 cut(s) 564, 646
BseDI CCNNGG 4 cut(s) 236, 383, 563, 904
BseLI CCNNNNNNNGG 3 cut(s) 171, 418, 722
BseMI GCAATG 1 cut(s) 223
BseMII CTCAG 3 cut(s) 102, 641, 1105
BseNI ACTGG 3 cut(s) 412, 438, 1107
BseRI GAGGAG 1 cut(s) 916
BseXI GCAGC 4 cut(s) 58, 754, 908, 976
Bsh1236I CGCG 1 cut(s) 84
Bsh1285I CGRYCG 1 cut(s) 82
BshFI GGCC 4 cut(s) 292, 433, 673, 903
BsiEI CGRYCG 1 cut(s) 82
BsiHKAI GWGCWC 1 cut(s) 95
BsiSI CCGG 1 cut(s) 75
BslI CCNNNNNNNGG 3 cut(s) 171, 418, 722
BsmAI GTCTC 1 cut(s) 356
BsnI GGCC 4 cut(s) 292, 433, 673, 903
Bsp119I TTCGAA 1 cut(s) 1112
Bsp1286I GDGCHC 1 cut(s) 95
Bsp143I GATC 6 cut(s) 24, 49, 98, 145, 508, 892
BspACI CCGC 4 cut(s) 82, 169, 335, 749
BspANI GGCC 4 cut(s) 292, 433, 673, 903
BspCNI CTCAG 3 cut(s) 103, 642, 1104
BspFNI CGCG 1 cut(s) 84
BspLI GGNNCC 1 cut(s) 727
BspPI GGATC 1 cut(s) 93
BspT104I TTCGAA 1 cut(s) 1112
BsrDI GCAATG 1 cut(s) 223
BsrFI RCCGGY 1 cut(s) 74
BsrI ACTGG 3 cut(s) 412, 438, 1107
BssAI RCCGGY 1 cut(s) 74
BssECI CCNNGG 4 cut(s) 236, 383, 563, 904
BssMI GATC 6 cut(s) 24, 49, 98, 145, 508, 892
BssNI GRCGYC 1 cut(s) 202
BssT1I CCWWGG 2 cut(s) 236, 383
Bst2UI CCWGG 2 cut(s) 564, 646
Bst4CI ACNGT 5 cut(s) 143, 367, 554, 587, 1036
Bst6I CTCTTC 1 cut(s) 180
BstACI GRCGYC 1 cut(s) 202
BstBI TTCGAA 1 cut(s) 1112
BstC8I GCNNGC 4 cut(s) 76, 435, 523, 765
BstDEI CTNAG 3 cut(s) 111, 650, 1091
BstDSI CCRYGG 1 cut(s) 904
BstFNI CGCG 1 cut(s) 84
BstKTI GATC 6 cut(s) 27, 52, 101, 148, 511, 895
BstMAI GTCTC 1 cut(s) 356
BstMBI GATC 6 cut(s) 24, 49, 98, 145, 508, 892
BstMCI CGRYCG 1 cut(s) 82
BstMWI GCNNNNNNNGC 4 cut(s) 90, 385, 909, 918
BstNI CCWGG 2 cut(s) 564, 646
BstNSI RCATGY 1 cut(s) 944
BstSCI CCNGG 2 cut(s) 562, 644
BstUI CGCG 1 cut(s) 84
BstV1I GCAGC 4 cut(s) 58, 754, 908, 976
BstV2I GAAGAC 2 cut(s) 69, 501
BstX2I RGATCY 1 cut(s) 98
BstYI RGATCY 1 cut(s) 98
BsuRI GGCC 4 cut(s) 292, 433, 673, 903
BtgI CCRYGG 1 cut(s) 904
BtgZI GCGATG 1 cut(s) 99
BtrI CACGTC 2 cut(s) 31, 1070
BtsIMutI CAGTG 4 cut(s) 148, 419, 445, 872
Cac8I GCNNGC 4 cut(s) 76, 435, 523, 765
Cfr10I RCCGGY 1 cut(s) 74
Cfr13I GGNCC 2 cut(s) 409, 726
CseI GACGC 1 cut(s) 191
Csp6I GTAC 1 cut(s) 255
CviAII CATG 2 cut(s) 775, 941
CviQI GTAC 1 cut(s) 255
DdeI CTNAG 3 cut(s) 111, 650, 1091
DpnI GATC 6 cut(s) 26, 51, 100, 147, 510, 894
DpnII GATC 6 cut(s) 24, 49, 98, 145, 508, 892
DraI TTTAAA 3 cut(s) 304, 427, 865
EaeI YGGCCR 2 cut(s) 290, 901
Eam1104I CTCTTC 1 cut(s) 180
EarI CTCTTC 1 cut(s) 180
Eco130I CCWWGG 2 cut(s) 236, 383
Eco147I AGGCCT 1 cut(s) 673
Eco32I GATATC 1 cut(s) 821
Eco47I GGWCC 2 cut(s) 409, 726
Eco57I CTGAAG 1 cut(s) 513
EcoRII CCWGG 2 cut(s) 562, 644
EcoRV GATATC 1 cut(s) 821
EcoT14I CCWWGG 2 cut(s) 236, 383
ErhI CCWWGG 2 cut(s) 236, 383
FaeI CATG 2 cut(s) 778, 944
FalI AAGNNNNNCTT 4 cut(s) 486, 518, 661, 693
FatI CATG 2 cut(s) 774, 940
FauI CCCGC 1 cut(s) 176
FauNDI CATATG 1 cut(s) 259
FblI GTMKAC 1 cut(s) 1066
Fnu4HI GCNGC 4 cut(s) 72, 768, 922, 965
Fsp4HI GCNGC 4 cut(s) 72, 768, 922, 965
GluI GCNGC 4 cut(s) 72, 768, 922, 965
GsuI CTGGAG 2 cut(s) 79, 301
HaeIII GGCC 4 cut(s) 292, 433, 673, 903
HapII CCGG 1 cut(s) 75
HgaI GACGC 1 cut(s) 191
Hin1I GRCGYC 1 cut(s) 202
Hin1II CATG 2 cut(s) 778, 944
HincII GTYRAC 2 cut(s) 1039, 1067
HindII GTYRAC 2 cut(s) 1039, 1067
HindIII AAGCTT 1 cut(s) 519
HinfI GANTC 5 cut(s) 65, 531, 545, 977, 1003
HpaII CCGG 1 cut(s) 75
HphI GGTGA 2 cut(s) 602, 983
Hpy166II GTNNAC 3 cut(s) 607, 1039, 1067
Hpy188III TCNNGA 5 cut(s) 96, 206, 729, 857, 1128
Hpy8I GTNNAC 3 cut(s) 607, 1039, 1067
Hpy99I CGWCG 3 cut(s) 32, 1068, 1071
HpyAV CCTTC 9 cut(s) 335, 400, 461, 498, 562, 595, 623, 663, 716
HpyCH4III ACNGT 5 cut(s) 143, 367, 554, 587, 1036
HpyCH4IV ACGT 2 cut(s) 30, 1069
HpyCH4V TGCA 1 cut(s) 525
HpyF10VI GCNNNNNNNGC 4 cut(s) 90, 385, 909, 918
HpyF3I CTNAG 3 cut(s) 111, 650, 1091
HpySE526I ACGT 2 cut(s) 30, 1069
Hsp92I GRCGYC 1 cut(s) 202
Hsp92II CATG 2 cut(s) 778, 944
KroI GCCGGC 1 cut(s) 74
KroNI GCCGGC 1 cut(s) 76
Kzo9I GATC 6 cut(s) 24, 49, 98, 145, 508, 892
LmnI GCTCC 4 cut(s) 98, 127, 802, 929
Lsp1109I GCAGC 4 cut(s) 58, 754, 908, 976
MaeII ACGT 2 cut(s) 30, 1069
MaeIII GTNAC 4 cut(s) 41, 191, 390, 1078
MalI GATC 6 cut(s) 26, 51, 100, 147, 510, 894
MboI GATC 6 cut(s) 24, 49, 98, 145, 508, 892
MfeI CAATTG 1 cut(s) 997
MflI RGATCY 1 cut(s) 98
MhlI GDGCHC 1 cut(s) 95
MluCI AATT 5 cut(s) 294, 579, 706, 957, 997
MlyI GAGTC 1 cut(s) 59
MroNI GCCGGC 1 cut(s) 74
MseI TTAA 5 cut(s) 303, 426, 804, 864, 960
MspA1I CMGCKG 1 cut(s) 171
MspI CCGG 1 cut(s) 75
MspR9I CCNGG 2 cut(s) 564, 646
MunI CAATTG 1 cut(s) 997
MvaI CCWGG 2 cut(s) 564, 646
MvnI CGCG 1 cut(s) 84
MwoI GCNNNNNNNGC 4 cut(s) 90, 385, 909, 918
NaeI GCCGGC 1 cut(s) 76
NdeI CATATG 1 cut(s) 259
NdeII GATC 6 cut(s) 24, 49, 98, 145, 508, 892
NgoMIV GCCGGC 1 cut(s) 74
NlaIII CATG 2 cut(s) 778, 944
NlaIV GGNNCC 1 cut(s) 727
NmeAIII GCCGAG 1 cut(s) 47
NmuCI GTSAC 2 cut(s) 41, 390
NspI RCATGY 1 cut(s) 944
NspV TTCGAA 1 cut(s) 1112
PceI AGGCCT 1 cut(s) 673
PciI ACATGT 1 cut(s) 940
PcsI WCGNNNNNNNCGW 2 cut(s) 45, 295
PdiI GCCGGC 1 cut(s) 76
PfeI GAWTC 4 cut(s) 531, 545, 977, 1003
PkrI GCNGC 4 cut(s) 73, 769, 923, 966
PleI GAGTC 1 cut(s) 59
PpsI GAGTC 1 cut(s) 59
PscI ACATGT 1 cut(s) 940
Psp6I CCWGG 2 cut(s) 562, 644
PspGI CCWGG 2 cut(s) 562, 644
PspN4I GGNNCC 1 cut(s) 727
PspPI GGNCC 2 cut(s) 409, 726
PsuI RGATCY 1 cut(s) 98
RsaI GTAC 1 cut(s) 256
RsaNI GTAC 1 cut(s) 255
SalI GTCGAC 1 cut(s) 1065
SaqAI TTAA 5 cut(s) 303, 426, 804, 864, 960
SatI GCNGC 4 cut(s) 72, 768, 922, 965
Sau3AI GATC 6 cut(s) 24, 49, 98, 145, 508, 892
Sau96I GGNCC 2 cut(s) 409, 726
SchI GAGTC 1 cut(s) 59
ScrFI CCNGG 2 cut(s) 564, 646
SduI GDGCHC 1 cut(s) 95
SfuI TTCGAA 1 cut(s) 1112
SgrDI CGTCGACG 1 cut(s) 1065
SinI GGWCC 2 cut(s) 409, 726
Sse9I AATT 5 cut(s) 294, 579, 706, 957, 997
SseBI AGGCCT 1 cut(s) 673
SsiI CCGC 4 cut(s) 82, 169, 335, 749
StuI AGGCCT 1 cut(s) 673
StyD4I CCNGG 2 cut(s) 562, 644
StyI CCWWGG 2 cut(s) 236, 383
TaaI ACNGT 5 cut(s) 143, 367, 554, 587, 1036
TaiI ACGT 2 cut(s) 33, 1072
TaqI TCGA 3 cut(s) 27, 1066, 1112
TaqII GACCGA 1 cut(s) 29
TasI AATT 5 cut(s) 294, 579, 706, 957, 997
TatI WGTACW 1 cut(s) 254
TfiI GAWTC 4 cut(s) 531, 545, 977, 1003
Tru1I TTAA 5 cut(s) 303, 426, 804, 864, 960
Tru9I TTAA 5 cut(s) 303, 426, 804, 864, 960
TscAI CASTG 4 cut(s) 148, 419, 445, 879
TseFI GTSAC 2 cut(s) 41, 390
TseI GCWGC 4 cut(s) 71, 767, 921, 964
Tsp45I GTSAC 2 cut(s) 41, 390
TspDTI ATGAA 3 cut(s) 294, 735, 763
TspRI CASTG 4 cut(s) 148, 419, 445, 879
VpaK11BI GGWCC 2 cut(s) 409, 726
XceI RCATGY 1 cut(s) 944
XmiI GTMKAC 1 cut(s) 1066
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.