Rh7DG238700

poly(U)-specific endoribonuclease-B-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr7D
OG0012207
Physical Location & Seq
Reverse (-)
24300681 .. 24304849
4169 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh7DG238700.1

Sequence Viewer

Length: 1086 bp
ATGTTCTCACCGGGATCAATGATACAGAGTACGCATGAGAGATATGAGAACAATGAAGATGGTGGGCCAATTGGTTATAAACAAAACTACTCCAGCAGAAAGGAGGAAGGCAAAGAAGGAAATAATGATGGTTGGGAGACTGTCGGAAAGAAGCCTCCAAGGCAATCACACAAGGTTCAGAAGGACCGGTGGCAGGGATATAAACAGCCTGCCAGTGAGCAACAATACTCTGATGAGGTTGAAGGAGGTGCTAGCATAGAACCTTCAGAAGACGAGCTTGCTGATCTGTCACAAGCTTGCAATAGATTCTGGGAACTTGATTCAAACCATTTAGTGCCTGGAAAGGACTATGAAATTGACTGTGGTGAAGGGAAGAAGGTTTACCATAAGGGAGATTTAGCAGAAGGAAACTTATTTACCTGGCTGAGTGAAGATGTGTTCAGAAGGCCTACTTTTTCTCGTTTCTGTTCTCTTTTAGATAACTACAACCCAAATGAAGGCAGCAGAGAAGTCATCACATCTGAGGAGAAACAGGAGCAAGCTGCATTCATAGAAGAAATCAGCAGAACTGCTCCCATTAAATATCTGCACAGATATCTCTCACGCAAGGGCATGGTATCTGAGAACTATCAAGAGTTTAAAAGAACATTGACTGCTCTTTGGTTTGATCTTTATGGACGTGGTGGCACTTCTGGTTGTTCCTCTGCTTTTGAACATGTTTTTGTGGGAGAAATTAAGCAGCGTGGTGAAGAAGAGGTTTCTGGCTTCCACAATTGGATTCAGTTCTACCTTGAAGAAGCAAAAGGAACGGTTAACTATCAAGGTTATATATTCCCTCGTCGACGTGGGGAAATTCCAGACTCTGAAACCCAGTTGCTTACAATCCAGTTCGAATGGAATGGTGTCCTGAAAGCCGTATCAAGCACTTTAGTTGGGGTGAGCCCAGAATTTGAAGTTGCATTGTATACCTTGTGTTTCTACATGGGTGGAGAGGACAACCACATTCAGCTGGGTCCATACCCAGTTAACATCAAGTGCTATCGCTTTGGAGATAGAATTGGATCTGTGTTTCCAATGGGAGAGTGA
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

361

Amino Acids

41.31

Weight (kDa)

5.06

Isoelectric Point (pI)

54.07

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
XendoU PF09412 95 - 358 1.8e-95 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)
AanI TTATAA 1 cut(s) 78
AccI GTMKAC 2 cut(s) 841, 965
AclWI GGATC 2 cut(s) 22, 1069
AcsI RAATTY 2 cut(s) 852, 947
AcuI CTGAAG 1 cut(s) 249
AfaI GTAC 1 cut(s) 31
AfiI CCNNNNNNNGG 2 cut(s) 193, 497
AflIII ACRYGT 1 cut(s) 715
AgeI ACCGGT 1 cut(s) 186
AgsI TTSAA 5 cut(s) 242, 324, 713, 794, 953
AjiI CACGTC 2 cut(s) 680, 845
AjnI CCWGG 2 cut(s) 337, 419
AluBI AGCT 4 cut(s) 277, 296, 542, 1009
AluI AGCT 4 cut(s) 277, 296, 542, 1009
Alw26I GTCTC 1 cut(s) 131
AlwI GGATC 2 cut(s) 22, 1069
AlwNI CAGNNNCTG 1 cut(s) 863
AoxI GGCC 2 cut(s) 65, 446
ApeKI GCWGC 3 cut(s) 501, 542, 739
ApoI RAATTY 2 cut(s) 852, 947
AsiGI ACCGGT 1 cut(s) 186
AspS9I GGNCC 3 cut(s) 65, 184, 1013
AsuC2I CCSGG 1 cut(s) 12
AsuHPI GGTGA 3 cut(s) 377, 758, 949
AsuII TTCGAA 1 cut(s) 891
AsuNHI GCTAGC 1 cut(s) 251
AvaII GGWCC 2 cut(s) 184, 1013
BanII GRGCYC 1 cut(s) 944
BarI GAAGNNNNNNTAC 2 cut(s) 365, 397
BbsI GAAGAC 1 cut(s) 276
BbvI GCAGC 3 cut(s) 513, 529, 751
BccI CCATC 2 cut(s) 53, 122
BceAI ACGGC 1 cut(s) 899
BciT130I CCWGG 2 cut(s) 339, 421
BcnI CCSGG 1 cut(s) 12
BcoDI GTCTC 1 cut(s) 131
BfaI CTAG 1 cut(s) 252
BglI GCCNNNNNGGC 1 cut(s) 160
BisI GCNGC 3 cut(s) 502, 543, 740
BlsI GCNGC 3 cut(s) 503, 544, 741
Bme1390I CCNGG 3 cut(s) 12, 339, 421
Bme18I GGWCC 2 cut(s) 184, 1013
BmgBI CACGTC 2 cut(s) 680, 845
BmgT120I GGNCC 3 cut(s) 65, 184, 1013
BmiI GGNNCC 1 cut(s) 1014
BmrFI CCNGG 3 cut(s) 12, 339, 421
BmrI ACTGGG 2 cut(s) 865, 1016
BmtI GCTAGC 1 cut(s) 255
BmuI ACTGGG 2 cut(s) 865, 1016
BpiI GAAGAC 1 cut(s) 276
BpmI CTGGAG 1 cut(s) 76
Bpu14I TTCGAA 1 cut(s) 891
BpuMI CCSGG 1 cut(s) 12
BsaJI CCNNGG 1 cut(s) 158
BsaWI WCCGGW 1 cut(s) 186
Bsc4I CCNNNNNNNGG 2 cut(s) 193, 497
Bse118I RCCGGY 1 cut(s) 186
Bse1I ACTGG 4 cut(s) 213, 871, 886, 1022
BseBI CCWGG 2 cut(s) 339, 421
BseDI CCNNGG 1 cut(s) 158
BseLI CCNNNNNNNGG 2 cut(s) 193, 497
BseMII CTCAG 3 cut(s) 416, 513, 612
BseNI ACTGG 4 cut(s) 213, 871, 886, 1022
BseRI GAGGAG 1 cut(s) 539
BseXI GCAGC 3 cut(s) 513, 529, 751
BseYI CCCAGC 1 cut(s) 1009
BsgI GTGCAG 1 cut(s) 572
BshFI GGCC 2 cut(s) 67, 448
BshTI ACCGGT 1 cut(s) 186
BsiSI CCGG 2 cut(s) 11, 187
BslI CCNNNNNNNGG 2 cut(s) 193, 497
BsmAI GTCTC 1 cut(s) 131
BsmI GAATGC 1 cut(s) 545
BsnI GGCC 2 cut(s) 67, 448
Bsp119I TTCGAA 1 cut(s) 891
Bsp1286I GDGCHC 1 cut(s) 944
Bsp143I GATC 4 cut(s) 14, 283, 667, 1061
BspANI GGCC 2 cut(s) 67, 448
BspCNI CTCAG 3 cut(s) 417, 514, 613
BspLI GGNNCC 1 cut(s) 1014
BspOI GCTAGC 1 cut(s) 255
BspPI GGATC 2 cut(s) 22, 1069
BspT104I TTCGAA 1 cut(s) 891
BsrFI RCCGGY 1 cut(s) 186
BsrI ACTGG 4 cut(s) 213, 871, 886, 1022
BssAI RCCGGY 1 cut(s) 186
BssECI CCNNGG 1 cut(s) 158
BssMI GATC 4 cut(s) 14, 283, 667, 1061
BssNAI GTATAC 1 cut(s) 966
BssT1I CCWWGG 1 cut(s) 158
Bst1107I GTATAC 1 cut(s) 966
Bst2UI CCWGG 2 cut(s) 339, 421
Bst4CI ACNGT 3 cut(s) 142, 362, 811
Bst6I CTCTTC 1 cut(s) 747
BstBI TTCGAA 1 cut(s) 891
BstC8I GCNNGC 5 cut(s) 210, 253, 279, 298, 540
BstDEI CTNAG 3 cut(s) 425, 522, 621
BstKTI GATC 4 cut(s) 17, 286, 670, 1064
BstMAI GTCTC 1 cut(s) 131
BstMBI GATC 4 cut(s) 14, 283, 667, 1061
BstMWI GCNNNNNNNGC 1 cut(s) 160
BstNI CCWGG 2 cut(s) 339, 421
BstNSI RCATGY 1 cut(s) 719
BstSCI CCNGG 3 cut(s) 10, 337, 419
BstV1I GCAGC 3 cut(s) 513, 529, 751
BstV2I GAAGAC 1 cut(s) 276
BstX2I RGATCY 1 cut(s) 1061
BstYI RGATCY 1 cut(s) 1061
BstZ17I GTATAC 1 cut(s) 966
BsuRI GGCC 2 cut(s) 67, 448
BtrI CACGTC 2 cut(s) 680, 845
BtsIMutI CAGTG 1 cut(s) 220
Cac8I GCNNGC 5 cut(s) 210, 253, 279, 298, 540
CaiI CAGNNNCTG 1 cut(s) 863
Cfr10I RCCGGY 1 cut(s) 186
Cfr13I GGNCC 3 cut(s) 65, 184, 1013
Csp6I GTAC 1 cut(s) 30
CspAI ACCGGT 1 cut(s) 186
CviAII CATG 4 cut(s) 35, 613, 716, 982
CviQI GTAC 1 cut(s) 30
DdeI CTNAG 3 cut(s) 425, 522, 621
DpnI GATC 4 cut(s) 16, 285, 669, 1063
DpnII GATC 4 cut(s) 14, 283, 667, 1061
DraI TTTAAA 1 cut(s) 640
Eam1104I CTCTTC 1 cut(s) 747
EarI CTCTTC 1 cut(s) 747
Eco130I CCWWGG 1 cut(s) 158
Eco147I AGGCCT 1 cut(s) 448
Eco24I GRGCYC 1 cut(s) 944
Eco32I GATATC 1 cut(s) 596
Eco47I GGWCC 2 cut(s) 184, 1013
Eco57I CTGAAG 1 cut(s) 249
EcoRII CCWGG 2 cut(s) 337, 419
EcoRV GATATC 1 cut(s) 596
EcoT14I CCWWGG 1 cut(s) 158
EcoT38I GRGCYC 1 cut(s) 944
ErhI CCWWGG 1 cut(s) 158
FaeI CATG 4 cut(s) 38, 616, 719, 985
FalI AAGNNNNNCTT 4 cut(s) 261, 293, 436, 468
FatI CATG 4 cut(s) 34, 612, 715, 981
FblI GTMKAC 2 cut(s) 841, 965
Fnu4HI GCNGC 3 cut(s) 502, 543, 740
FriOI GRGCYC 1 cut(s) 944
Fsp4HI GCNGC 3 cut(s) 502, 543, 740
FspBI CTAG 1 cut(s) 252
GluI GCNGC 3 cut(s) 502, 543, 740
GsaI CCCAGC 1 cut(s) 1013
GsuI CTGGAG 1 cut(s) 76
HaeIII GGCC 2 cut(s) 67, 448
HapII CCGG 2 cut(s) 11, 187
Hin1II CATG 4 cut(s) 38, 616, 719, 985
HincII GTYRAC 3 cut(s) 814, 842, 1027
HindII GTYRAC 3 cut(s) 814, 842, 1027
HindIII AAGCTT 1 cut(s) 294
HinfI GANTC 4 cut(s) 306, 320, 778, 860
HpaI GTTAAC 2 cut(s) 814, 1027
HpaII CCGG 2 cut(s) 11, 187
HphI GGTGA 3 cut(s) 377, 758, 949
Hpy166II GTNNAC 5 cut(s) 382, 814, 842, 966, 1027
Hpy188I TCNGA 8 cut(s) 146, 180, 232, 268, 443, 523, 622, 865
Hpy188III TCNNGA 3 cut(s) 632, 857, 907
Hpy8I GTNNAC 5 cut(s) 382, 814, 842, 966, 1027
Hpy99I CGWCG 2 cut(s) 843, 846
HpyCH4III ACNGT 3 cut(s) 142, 362, 811
HpyCH4IV ACGT 2 cut(s) 679, 844
HpyCH4V TGCA 4 cut(s) 300, 545, 589, 959
HpyF10VI GCNNNNNNNGC 1 cut(s) 160
HpyF3I CTNAG 3 cut(s) 425, 522, 621
HpySE526I ACGT 2 cut(s) 679, 844
Hsp92II CATG 4 cut(s) 38, 616, 719, 985
KspAI GTTAAC 2 cut(s) 814, 1027
Kzo9I GATC 4 cut(s) 14, 283, 667, 1061
LmnI GCTCC 2 cut(s) 535, 577
Lsp1109I GCAGC 3 cut(s) 513, 529, 751
MaeI CTAG 1 cut(s) 252
MaeII ACGT 2 cut(s) 679, 844
MaeIII GTNAC 1 cut(s) 288
MalI GATC 4 cut(s) 16, 285, 669, 1063
MboI GATC 4 cut(s) 14, 283, 667, 1061
MboII GAAGA 8 cut(s) 68, 281, 385, 443, 566, 761, 764, 806
MfeI CAATTG 2 cut(s) 69, 772
MflI RGATCY 1 cut(s) 1061
MhlI GDGCHC 1 cut(s) 944
MluCI AATT 7 cut(s) 69, 354, 732, 772, 852, 947, 1056
MlyI GAGTC 1 cut(s) 854
MmeI TCCRAC 1 cut(s) 124
MnlI CCTC 9 cut(s) 97, 165, 229, 239, 517, 712, 748, 846, 985
MseI TTAA 5 cut(s) 579, 639, 735, 813, 1026
MspA1I CMGCKG 1 cut(s) 1009
MspI CCGG 2 cut(s) 11, 187
MspR9I CCNGG 3 cut(s) 12, 339, 421
MunI CAATTG 2 cut(s) 69, 772
Mva1269I GAATGC 1 cut(s) 545
MvaI CCWGG 2 cut(s) 339, 421
MwoI GCNNNNNNNGC 1 cut(s) 160
NciI CCSGG 1 cut(s) 12
NdeII GATC 4 cut(s) 14, 283, 667, 1061
NheI GCTAGC 1 cut(s) 251
NlaIII CATG 4 cut(s) 38, 616, 719, 985
NlaIV GGNNCC 1 cut(s) 1014
NmuCI GTSAC 1 cut(s) 288
NspI RCATGY 1 cut(s) 719
NspV TTCGAA 1 cut(s) 891
PceI AGGCCT 1 cut(s) 448
PciI ACATGT 1 cut(s) 715
PctI GAATGC 1 cut(s) 545
PfeI GAWTC 3 cut(s) 306, 320, 778
PinAI ACCGGT 1 cut(s) 186
PkrI GCNGC 3 cut(s) 503, 544, 741
PleI GAGTC 1 cut(s) 854
PpsI GAGTC 1 cut(s) 854
PscI ACATGT 1 cut(s) 715
PsiI TTATAA 1 cut(s) 78
Psp6I CCWGG 2 cut(s) 337, 419
PspFI CCCAGC 1 cut(s) 1009
PspGI CCWGG 2 cut(s) 337, 419
PspN4I GGNNCC 1 cut(s) 1014
PspPI GGNCC 3 cut(s) 65, 184, 1013
PstNI CAGNNNCTG 1 cut(s) 863
PsuI RGATCY 1 cut(s) 1061
PvuII CAGCTG 1 cut(s) 1009
RsaI GTAC 1 cut(s) 31
RsaNI GTAC 1 cut(s) 30
SalI GTCGAC 1 cut(s) 840
SaqAI TTAA 5 cut(s) 579, 639, 735, 813, 1026
SatI GCNGC 3 cut(s) 502, 543, 740
Sau3AI GATC 4 cut(s) 14, 283, 667, 1061
Sau96I GGNCC 3 cut(s) 65, 184, 1013
SchI GAGTC 1 cut(s) 854
ScrFI CCNGG 3 cut(s) 12, 339, 421
SduI GDGCHC 1 cut(s) 944
SfuI TTCGAA 1 cut(s) 891
SgrDI CGTCGACG 1 cut(s) 840
SinI GGWCC 2 cut(s) 184, 1013
Sse9I AATT 7 cut(s) 69, 354, 732, 772, 852, 947, 1056
SseBI AGGCCT 1 cut(s) 448
SspMI CTAG 1 cut(s) 252
StuI AGGCCT 1 cut(s) 448
StyD4I CCNGG 3 cut(s) 10, 337, 419
StyI CCWWGG 1 cut(s) 158
TaaI ACNGT 3 cut(s) 142, 362, 811
TaiI ACGT 2 cut(s) 682, 847
TaqI TCGA 2 cut(s) 841, 891
TasI AATT 7 cut(s) 69, 354, 732, 772, 852, 947, 1056
TfiI GAWTC 3 cut(s) 306, 320, 778
Tru1I TTAA 5 cut(s) 579, 639, 735, 813, 1026
Tru9I TTAA 5 cut(s) 579, 639, 735, 813, 1026
TscAI CASTG 1 cut(s) 220
TseFI GTSAC 1 cut(s) 288
TseI GCWGC 3 cut(s) 501, 542, 739
Tsp45I GTSAC 1 cut(s) 288
TspDTI ATGAA 4 cut(s) 69, 366, 510, 538
TspRI CASTG 1 cut(s) 220
VpaK11BI GGWCC 2 cut(s) 184, 1013
XapI RAATTY 2 cut(s) 852, 947
XceI RCATGY 1 cut(s) 719
XcmI CCANNNNNNNNNTGG 1 cut(s) 335
XmiI GTMKAC 2 cut(s) 841, 965
XspI CTAG 1 cut(s) 252
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.