RchiOBHm_Chr4g0428911

Ubiquitin thioesterase otubain-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
4
OG0012440
Physical Location & Seq
Forward (+)
53806213 .. 53811052
4840 bp
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UTR
Exon/CDS
Intron
PRQ39775

Sequence Viewer

Length: 993 bp
ATGAATTATTACGCAAGGGTGAAAAAGGTAAACACTGAAATTACTGAACAAGTAAGTACAAAGCTGACATCCAAACCTTCCAAAGTCTTCATCGCAAAAGACCCAGAGAGAGAGAGAGAGCGCCACCCCATTTTTCCAATTCGATCCCAACGCCCAGTCCAGACGACGCCGTTTTCTCCCCAGGCAATGCAGAATCAGGAAGGGCTTCAAGTACAAGTGGATGGGGAAGTGGAGTCTGGGCCGGCCCCCTCGGAACCACTCTCGTCGCTGGCAGCTGAGTATCAATCAGGCAGCGCTATTTTGTTGGAGAAAATAAAGGTTCTTGGTGAACAATATGCTGCCATTAGGAGAACCCGGGGCGACGGGAACTGCTTCTTCCGAAGCTTTATGTTTTCATACCTGGAGCATATTTTGGAATCACAAGATGTAAGTGAAGTTGATCGTATCAAGGCTAATGTTGAACAATGTAGAAAAACACTTCAGAGCTTGGGTTATGCAGACTTTACCTTTGAGGACTTCTTTTCGCTATTTCTTGAGCAACTGGATAGTGTTCTTCAAGGAAATGAAGAATCCATTAGTCATGATGAGCTCATACTTCGGAGCCGTGATCAGTCAGTATCCGACTATGTTGTGATGTTTTTCAGATTTGTTACCTCTGGTGAAATAAGGAAGCGCTCAGAGTTTTTTGAACCTTTTATATTGGGATTAACCAATGCAACCGTAGAGCAGTTTTGCAAGTCATCAGTGGAACCAATGGGTGAAGAAAGTGACCACGTGCACATCACTGCCCTGTCAGATGCACTGGGTGTGCCAATCCGTGTTGTGTACCTTGACCGCAGCTCATGTGATTCTGGTGGTGTTAGCGTGAATCATCACGATTTCGTTCCTGCTGGCAATGATCTGCCAAATGCAAGCGATAGCCCTGAGAAAGTTAGTCCTTTTATTACCTTGCTATATCGCCCAGGTCACTACGATATTCTCTACCCCAAGTGA

Protein Analysis

330

Amino Acids

37.28

Weight (kDa)

5.1

Isoelectric Point (pI)

63.73

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Peptidase_C65 PF10275 84 - 329 1.4e-87 Peptidase C65 Otubain
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: OG0012440)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G28120
fragaria_vesca FvH4_4g22670 FvH4_4g22670
malus_domestica MD00G1177400.v1.1 MD13G1130400.v1.1
prunus_persica Prupe.1G215300_v2.0.a1
pyrus_communis pycom13g11370
rosa_chinensis RchiOBHm_Chr4g0428911 RchiOBHm_Chr7g0205601
rosa_laevigata RLG00000007115
rosa_multiflora Rmu_sc0008612.1_g000010 Rmu_sc0015419.1_g000004 Rmu_sc0019159.1_g000001
rosa_roxburghii Rroxscaffold_5G00370580
rosa_rugosa Rorug04G0230400
rosa_samantha Rh4BG292700 Rh4CG308800 Rh4DG289900
rosa_wichuraiana Rw4G024880

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 835
AclWI GGATC 1 cut(s) 138
AcuI CTGAAG 1 cut(s) 464
AcvI CACGTG 1 cut(s) 775
AcyI GRCGYC 1 cut(s) 167
AdeI CACNNNGTG 1 cut(s) 806
AfaI GTAC 3 cut(s) 58, 213, 827
AfeI AGCGCT 2 cut(s) 295, 674
AgsI TTSAA 4 cut(s) 209, 461, 557, 689
AjnI CCWGG 3 cut(s) 180, 399, 961
AluBI AGCT 6 cut(s) 64, 275, 384, 486, 589, 840
AluI AGCT 6 cut(s) 64, 275, 384, 486, 589, 840
Alw21I GWGCWC 2 cut(s) 591, 780
Alw44I GTGCAC 1 cut(s) 776
AlwI GGATC 1 cut(s) 138
Ama87I CYCGRG 1 cut(s) 354
Aor51HI AGCGCT 2 cut(s) 295, 674
AoxI GGCC 2 cut(s) 239, 243
ApaLI GTGCAC 1 cut(s) 776
ApeKI GCWGC 4 cut(s) 272, 291, 338, 837
ArsI GACNNNNNNTTYG 2 cut(s) 491, 523
Asp700I GAANNNNTTC 2 cut(s) 204, 371
AspLEI GCGC 3 cut(s) 123, 296, 675
AspS9I GGNCC 2 cut(s) 239, 244
AsuC2I CCSGG 2 cut(s) 355, 356
AsuHPI GGTGA 4 cut(s) 31, 338, 671, 770
AvaI CYCGRG 1 cut(s) 354
BaeGI GKGCMC 1 cut(s) 780
BanII GRGCYC 1 cut(s) 591
BbrPI CACGTG 1 cut(s) 775
BbsI GAAGAC 1 cut(s) 79
Bbv12I GWGCWC 2 cut(s) 591, 780
BbvI GCAGC 4 cut(s) 284, 303, 325, 849
BccI CCATC 1 cut(s) 215
BceAI ACGGC 2 cut(s) 154, 588
BciT130I CCWGG 3 cut(s) 182, 401, 963
BciVI GTATCC 1 cut(s) 628
BclI TGATCA 1 cut(s) 607
BcnI CCSGG 2 cut(s) 355, 356
BfoI RGCGCY 3 cut(s) 124, 297, 676
BfuI GTATCC 1 cut(s) 628
BisI GCNGC 4 cut(s) 273, 292, 339, 838
BlsI GCNGC 4 cut(s) 274, 293, 340, 839
Bme1390I CCNGG 5 cut(s) 182, 355, 356, 401, 963
BmeT110I CYCGRG 1 cut(s) 354
BmgT120I GGNCC 2 cut(s) 239, 244
BmiI GGNNCC 4 cut(s) 246, 255, 602, 750
BmrFI CCNGG 5 cut(s) 182, 355, 356, 401, 963
BmrI ACTGGG 2 cut(s) 149, 812
BmsI GCATC 1 cut(s) 787
BmuI ACTGGG 2 cut(s) 149, 812
BpiI GAAGAC 1 cut(s) 79
BpmI CTGGAG 1 cut(s) 422
BpuEI CTTGAG 1 cut(s) 554
BpuMI CCSGG 2 cut(s) 355, 356
BsaAI YACGTR 1 cut(s) 775
BsaHI GRCGYC 1 cut(s) 167
BsaJI CCNNGG 5 cut(s) 180, 249, 354, 355, 961
Bse118I RCCGGY 1 cut(s) 241
Bse1I ACTGG 3 cut(s) 155, 546, 807
Bse3DI GCAATG 2 cut(s) 192, 901
BseBI CCWGG 3 cut(s) 182, 401, 963
BseDI CCNNGG 5 cut(s) 180, 249, 354, 355, 961
BseGI GGATG 2 cut(s) 68, 226
BseMI GCAATG 2 cut(s) 192, 901
BseMII CTCAG 3 cut(s) 267, 690, 915
BseNI ACTGG 3 cut(s) 155, 546, 807
BseSI GKGCMC 1 cut(s) 780
BseXI GCAGC 4 cut(s) 284, 303, 325, 849
BshFI GGCC 2 cut(s) 241, 245
BsiHKAI GWGCWC 2 cut(s) 591, 780
BsiHKCI CYCGRG 1 cut(s) 354
BsiSI CCGG 2 cut(s) 242, 355
BsnI GGCC 2 cut(s) 241, 245
BsoBI CYCGRG 1 cut(s) 354
Bsp1286I GDGCHC 2 cut(s) 591, 780
Bsp143I GATC 4 cut(s) 143, 439, 607, 898
BspACI CCGC 1 cut(s) 835
BspANI GGCC 2 cut(s) 241, 245
BspCNI CTCAG 3 cut(s) 268, 689, 916
BspHI TCATGA 1 cut(s) 580
BspLI GGNNCC 4 cut(s) 246, 255, 602, 750
BspPI GGATC 1 cut(s) 138
BsrDI GCAATG 2 cut(s) 192, 901
BsrFI RCCGGY 1 cut(s) 241
BsrI ACTGG 3 cut(s) 155, 546, 807
BssAI RCCGGY 1 cut(s) 241
BssECI CCNNGG 5 cut(s) 180, 249, 354, 355, 961
BssMI GATC 4 cut(s) 143, 439, 607, 898
BssNI GRCGYC 1 cut(s) 167
Bst2UI CCWGG 3 cut(s) 182, 401, 963
Bst4CI ACNGT 1 cut(s) 721
BstACI GRCGYC 1 cut(s) 167
BstBAI YACGTR 1 cut(s) 775
BstC8I GCNNGC 4 cut(s) 243, 270, 892, 913
BstDEI CTNAG 3 cut(s) 276, 676, 924
BstF5I GGATG 2 cut(s) 68, 226
BstH2I RGCGCY 3 cut(s) 124, 297, 676
BstHHI GCGC 3 cut(s) 123, 296, 675
BstKTI GATC 4 cut(s) 146, 442, 610, 901
BstMBI GATC 4 cut(s) 143, 439, 607, 898
BstNI CCWGG 3 cut(s) 182, 401, 963
BstSCI CCNGG 5 cut(s) 180, 353, 354, 399, 961
BstSLI GKGCMC 1 cut(s) 780
BstV1I GCAGC 4 cut(s) 284, 303, 325, 849
BstV2I GAAGAC 1 cut(s) 79
BsuI GTATCC 1 cut(s) 628
BsuRI GGCC 2 cut(s) 241, 245
BtgZI GCGATG 1 cut(s) 76
BtsCI GGATG 2 cut(s) 68, 226
BtsI GCAGTG 1 cut(s) 783
BtsIMutI CAGTG 4 cut(s) 33, 750, 783, 800
Cac8I GCNNGC 4 cut(s) 243, 270, 892, 913
CciI TCATGA 1 cut(s) 580
CfoI GCGC 3 cut(s) 123, 296, 675
Cfr10I RCCGGY 1 cut(s) 241
Cfr13I GGNCC 2 cut(s) 239, 244
Cfr9I CCCGGG 1 cut(s) 354
CseI GACGC 1 cut(s) 175
Csp6I GTAC 3 cut(s) 57, 212, 826
CviAII CATG 2 cut(s) 581, 843
CviQI GTAC 3 cut(s) 57, 212, 826
DdeI CTNAG 3 cut(s) 276, 676, 924
DpnI GATC 4 cut(s) 145, 441, 609, 900
DpnII GATC 4 cut(s) 143, 439, 607, 898
DraIII CACNNNGTG 1 cut(s) 806
Ecl136II GAGCTC 1 cut(s) 589
Eco24I GRGCYC 1 cut(s) 591
Eco47III AGCGCT 2 cut(s) 295, 674
Eco53kI GAGCTC 1 cut(s) 589
Eco57I CTGAAG 1 cut(s) 464
Eco72I CACGTG 1 cut(s) 775
Eco88I CYCGRG 1 cut(s) 354
EcoICRI GAGCTC 1 cut(s) 589
EcoRII CCWGG 3 cut(s) 180, 399, 961
EcoT38I GRGCYC 1 cut(s) 591
FaeI CATG 2 cut(s) 584, 846
FatI CATG 2 cut(s) 580, 842
FbaI TGATCA 1 cut(s) 607
Fnu4HI GCNGC 4 cut(s) 273, 292, 339, 838
FokI GGATG 2 cut(s) 55, 233
FriOI GRGCYC 1 cut(s) 591
FseI GGCCGGCC 1 cut(s) 245
Fsp4HI GCNGC 4 cut(s) 273, 292, 339, 838
GlaI GCGC 3 cut(s) 122, 295, 674
GluI GCNGC 4 cut(s) 273, 292, 339, 838
GsuI CTGGAG 1 cut(s) 422
HaeII RGCGCY 3 cut(s) 124, 297, 676
HaeIII GGCC 2 cut(s) 241, 245
HapII CCGG 2 cut(s) 242, 355
HgaI GACGC 1 cut(s) 175
HhaI GCGC 3 cut(s) 123, 296, 675
Hin1I GRCGYC 1 cut(s) 167
Hin1II CATG 2 cut(s) 584, 846
Hin6I GCGC 3 cut(s) 121, 294, 673
HinP1I GCGC 3 cut(s) 121, 294, 673
HindIII AAGCTT 1 cut(s) 382
HinfI GANTC 6 cut(s) 193, 233, 416, 569, 848, 868
HpaII CCGG 2 cut(s) 242, 355
HphI GGTGA 4 cut(s) 31, 338, 671, 770
Hpy166II GTNNAC 4 cut(s) 31, 329, 778, 826
Hpy188I TCNGA 8 cut(s) 253, 380, 483, 600, 622, 644, 679, 796
Hpy188III TCNNGA 5 cut(s) 160, 197, 533, 581, 875
Hpy8I GTNNAC 4 cut(s) 31, 329, 778, 826
Hpy99I CGWCG 3 cut(s) 169, 268, 365
HpyAV CCTTC 2 cut(s) 87, 194
HpyCH4III ACNGT 1 cut(s) 721
HpyCH4IV ACGT 1 cut(s) 774
HpyCH4V TGCA 7 cut(s) 190, 497, 716, 735, 778, 800, 911
HpyF3I CTNAG 3 cut(s) 276, 676, 924
HpySE526I ACGT 1 cut(s) 774
Hsp92I GRCGYC 1 cut(s) 167
Hsp92II CATG 2 cut(s) 584, 846
HspAI GCGC 3 cut(s) 121, 294, 673
KroI GCCGGC 1 cut(s) 241
KroNI GCCGGC 1 cut(s) 243
Ksp22I TGATCA 1 cut(s) 607
Kzo9I GATC 4 cut(s) 143, 439, 607, 898
LmnI GCTCC 2 cut(s) 403, 600
Lsp1109I GCAGC 4 cut(s) 284, 303, 325, 849
LweI GCATC 1 cut(s) 787
MaeII ACGT 1 cut(s) 774
MaeIII GTNAC 3 cut(s) 649, 767, 965
MalI GATC 4 cut(s) 145, 441, 609, 900
MboI GATC 4 cut(s) 143, 439, 607, 898
MboII GAAGA 5 cut(s) 79, 367, 545, 578, 773
MhlI GDGCHC 2 cut(s) 591, 780
MluCI AATT 3 cut(s) 4, 39, 138
MlyI GAGTC 1 cut(s) 242
MmeI TCCRAC 2 cut(s) 285, 645
MnlI CCTC 3 cut(s) 259, 505, 664
MroNI GCCGGC 1 cut(s) 241
MroXI GAANNNNTTC 2 cut(s) 204, 371
MseI TTAA 1 cut(s) 707
MspA1I CMGCKG 1 cut(s) 275
MspI CCGG 2 cut(s) 242, 355
MspR9I CCNGG 5 cut(s) 182, 355, 356, 401, 963
MvaI CCWGG 3 cut(s) 182, 401, 963
NaeI GCCGGC 1 cut(s) 243
NciI CCSGG 2 cut(s) 355, 356
NdeII GATC 4 cut(s) 143, 439, 607, 898
NgoMIV GCCGGC 1 cut(s) 241
NlaIII CATG 2 cut(s) 584, 846
NlaIV GGNNCC 4 cut(s) 246, 255, 602, 750
NmuCI GTSAC 2 cut(s) 767, 965
PagI TCATGA 1 cut(s) 580
PdiI GCCGGC 1 cut(s) 243
PdmI GAANNNNTTC 2 cut(s) 204, 371
PfeI GAWTC 5 cut(s) 193, 416, 569, 848, 868
PkrI GCNGC 4 cut(s) 274, 293, 340, 839
PleI GAGTC 1 cut(s) 241
PmaCI CACGTG 1 cut(s) 775
PmlI CACGTG 1 cut(s) 775
PpsI GAGTC 1 cut(s) 241
Ppu21I YACGTR 1 cut(s) 775
Psp124BI GAGCTC 1 cut(s) 591
Psp6I CCWGG 3 cut(s) 180, 399, 961
PspCI CACGTG 1 cut(s) 775
PspGI CCWGG 3 cut(s) 180, 399, 961
PspN4I GGNNCC 4 cut(s) 246, 255, 602, 750
PspPI GGNCC 2 cut(s) 239, 244
PvuII CAGCTG 1 cut(s) 275
RigI GGCCGGCC 1 cut(s) 245
RsaI GTAC 3 cut(s) 58, 213, 827
RsaNI GTAC 3 cut(s) 57, 212, 826
SacI GAGCTC 1 cut(s) 591
SaqAI TTAA 1 cut(s) 707
SatI GCNGC 4 cut(s) 273, 292, 339, 838
Sau3AI GATC 4 cut(s) 143, 439, 607, 898
Sau96I GGNCC 2 cut(s) 239, 244
SchI GAGTC 1 cut(s) 242
ScrFI CCNGG 5 cut(s) 182, 355, 356, 401, 963
SduI GDGCHC 2 cut(s) 591, 780
SfaNI GCATC 1 cut(s) 787
SmaI CCCGGG 1 cut(s) 356
SmlI CTYRAG 1 cut(s) 533
SmoI CTYRAG 1 cut(s) 533
Sse9I AATT 3 cut(s) 4, 39, 138
SsiI CCGC 1 cut(s) 835
SstI GAGCTC 1 cut(s) 591
StyD4I CCNGG 5 cut(s) 180, 353, 354, 399, 961
TaaI ACNGT 1 cut(s) 721
TaiI ACGT 1 cut(s) 777
TaqI TCGA 1 cut(s) 142
TasI AATT 3 cut(s) 4, 39, 138
TatI WGTACW 2 cut(s) 56, 211
TfiI GAWTC 5 cut(s) 193, 416, 569, 848, 868
Tru1I TTAA 1 cut(s) 707
Tru9I TTAA 1 cut(s) 707
TscAI CASTG 4 cut(s) 40, 750, 790, 807
TseFI GTSAC 2 cut(s) 767, 965
TseI GCWGC 4 cut(s) 272, 291, 338, 837
Tsp45I GTSAC 2 cut(s) 767, 965
TspDTI ATGAA 4 cut(s) 17, 79, 384, 579
TspGWI ACGGA 1 cut(s) 806
TspMI CCCGGG 1 cut(s) 354
TspRI CASTG 4 cut(s) 40, 750, 790, 807
VneI GTGCAC 1 cut(s) 776
XmaI CCCGGG 1 cut(s) 354
XmnI GAANNNNTTC 2 cut(s) 204, 371
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.