Rh3DG345800

U-box domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3D
OG0012800
Physical Location & Seq
Forward (+)
39059697 .. 39064003
4307 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3DG345800.1

Sequence Viewer

Length: 1140 bp
ATGGATTCCCACTCCCTATCATCACCCGACGGTGGTCGGAGTACTTGCTGCGGCTCGCCCTCCCCATCCGTCCGTCGTGCGTTGGAGCTAATCCAATCGGACGATCACGCTTTGAAGCTCCAGGGTGCCCAGGAAATTCGACGCCTCACCAAAACCTCTCAGAGGTGTCGGCGCCAACTCTCCGACTCTGTGGGCCCACTCGTCTCCATGCTCCGACTTCACGACTCACCCGACTTTCATGAGTCTGCCCTCCTCGCCCTCCTCAACCTCGCCGTCAAGGATGACACGAACAAAATAAAGATTGTGGAAGCTGGTGCTTTAGAACCGATAATTACTTTCCTTCAGTCAGAAAATTCCAATCTGCAGGAGTATGCAACTGCATCTCTACTCACCTTATCAGCTTCTGCCTCCAACAAGCCAGTCATAAGTGCCTGCGGTGCCATTCCTCTTCTTGTTGAAATCCTTAGAGATGGAAGCCCACAAGCCAAAGTTGACTCTGTTATGGCTCTTTCCAATCTCTCAACCCACCCAATTAACCTTAGCATCATTCTTGAAGCGAAACCAGTCCCTTGTATAGTTACCTTGTTAAAAACCTGCAAAAAATCTTCAAAGACAGCTGAAAAATGCTGTGCTCTTATAGAATCTTTAGTGGGCTTTGATGAGGGTAGAACTGCCTTGACATCCGAAGAAGGTGGCGTGCTTGCAGTTATTGAGGTGCTTGAAAGTGGATCACTTCAAAGTCGAGAGCATGCTGTTGGTGCTCTACTAACAATGTGTCAAAGTGACAGATGCAAATATAGAGAAGCACTTCTTAAAGAAGGGGTAATCCCTGGACTTCTTGAGCTCACTGTTCAAGGAACAGCCAAGTCTCAGTCAAAAGCACAGACACTTTTGCGATTACTGAGGGAGTCCCCATACCCACGATCTGAGCTTGAACCGGACACACTCGAGAATATTGTGTCCAACATTATCTCTCAGATTGATGGTGAGGATCAGTCAGGCAAAGCAAAGAAGATGCTAGCTGAGATGGTTCAAGTTAGCATGGAACAGAGCTTGAGACATTTACAGCAAAGGGCTCTGGTATGCACACCCACTGATCTCCCTATCAATAGTTGTACCTCTGAGGTTTCTTTAAAATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Arm

Protein Analysis

379

Amino Acids

40.86

Weight (kDa)

5.89

Isoelectric Point (pI)

62.13

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
ARM_ARMC5 PF24768 26 - 163 2.5e-09 ARMC5
ARM_PUB PF25598 43 - 304 1e-15 Plant U-box protein ARM repeat region
ARM_ARMC5 PF24768 169 - 339 1.5e-07 ARMC5
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: OG0012800)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G03440
fragaria_vesca FvH4_1g29130
malus_domestica MD09G1261900.v1.1 MD17G1256900.v1.1
prunus_persica Prupe.3G159600_v2.0.a1
pyrus_communis pycom09g17620 pycom17g25920
rosa_chinensis RchiOBHm_Chr3g0493501 RchiOBHm_Chr3g0493511
rosa_laevigata RLG00000022710
rosa_multiflora Rmu_co8033802.1_g000001
rosa_roxburghii Rroxscaffold_6G00391540
rosa_rugosa Rorug03G0261600
rosa_samantha Rh3AG310500 Rh3BG346700 Rh3CG344500 Rh3DG345800
rosa_wichuraiana Rw3G027290

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 602
AccB1I GGYRCC 3 cut(s) 125, 171, 437
AciI CCGC 2 cut(s) 51, 435
AclWI GGATC 2 cut(s) 736, 999
AcsI RAATTY 2 cut(s) 135, 352
AcuI CTGAAG 1 cut(s) 326
AcyI GRCGYC 2 cut(s) 142, 172
AfaI GTAC 2 cut(s) 43, 1117
AfiI CCNNNNNNNGG 2 cut(s) 32, 162
AgsI TTSAA 9 cut(s) 115, 458, 554, 609, 722, 737, 854, 935, 1034
AjnI CCWGG 3 cut(s) 120, 129, 829
AluBI AGCT 9 cut(s) 88, 118, 311, 401, 617, 844, 931, 1022, 1053
AluI AGCT 9 cut(s) 88, 118, 311, 401, 617, 844, 931, 1022, 1053
Alw21I GWGCWC 3 cut(s) 634, 763, 846
Alw26I GTCTC 3 cut(s) 208, 873, 1051
AlwI GGATC 2 cut(s) 736, 999
AlwNI CAGNNNCTG 1 cut(s) 404
Ama87I CYCGRG 1 cut(s) 947
AoxI GGCC 1 cut(s) 193
ApaI GGGCCC 1 cut(s) 197
ApeKI GCWGC 1 cut(s) 48
ApoI RAATTY 2 cut(s) 135, 352
Asp700I GAANNNNTTC 1 cut(s) 807
AspLEI GCGC 1 cut(s) 174
AspS9I GGNCC 2 cut(s) 193, 194
AsuHPI GGTGA 5 cut(s) 15, 139, 219, 382, 998
AsuNHI GCTAGC 1 cut(s) 1018
AvaI CYCGRG 1 cut(s) 947
BaeGI GKGCMC 2 cut(s) 130, 197
BanI GGYRCC 3 cut(s) 125, 171, 437
BanII GRGCYC 3 cut(s) 197, 846, 1078
Bbv12I GWGCWC 3 cut(s) 634, 763, 846
BbvI GCAGC 1 cut(s) 35
BccI CCATC 4 cut(s) 73, 464, 977, 1021
BceAI ACGGC 1 cut(s) 257
BciT130I CCWGG 3 cut(s) 122, 131, 831
BcoDI GTCTC 3 cut(s) 208, 873, 1051
BfaI CTAG 1 cut(s) 1019
BfmI CTRYAG 1 cut(s) 362
BfoI RGCGCY 1 cut(s) 175
BfuAI ACCTGC 1 cut(s) 602
BisI GCNGC 2 cut(s) 49, 52
BlsI GCNGC 2 cut(s) 50, 53
BmcAI AGTACT 1 cut(s) 43
Bme1390I CCNGG 3 cut(s) 122, 131, 831
BmeT110I CYCGRG 1 cut(s) 947
BmgT120I GGNCC 2 cut(s) 193, 194
BmiI GGNNCC 4 cut(s) 127, 173, 195, 439
BmrFI CCNGG 3 cut(s) 122, 131, 831
BmsI GCATC 4 cut(s) 389, 552, 779, 1005
BmtI GCTAGC 1 cut(s) 1022
BoxI GACNNNNGTC 1 cut(s) 33
BpmI CTGGAG 1 cut(s) 104
Bpu10I CCTNAGC 1 cut(s) 539
BpuEI CTTGAG 2 cut(s) 860, 1075
BsaHI GRCGYC 2 cut(s) 142, 172
BsaJI CCNNGG 3 cut(s) 121, 129, 829
BsaWI WCCGGW 1 cut(s) 937
Bsc4I CCNNNNNNNGG 2 cut(s) 32, 162
Bse1I ACTGG 2 cut(s) 419, 563
BseBI CCWGG 3 cut(s) 122, 131, 831
BseDI CCNNGG 3 cut(s) 121, 129, 829
BseGI GGATG 3 cut(s) 65, 286, 680
BseLI CCNNNNNNNGG 2 cut(s) 32, 162
BseMII CTCAG 7 cut(s) 173, 884, 893, 918, 989, 1014, 1113
BseNI ACTGG 2 cut(s) 419, 563
BseRI GAGGAG 2 cut(s) 242, 251
BseSI GKGCMC 2 cut(s) 130, 197
BseXI GCAGC 1 cut(s) 35
BshFI GGCC 1 cut(s) 195
BshNI GGYRCC 3 cut(s) 125, 171, 437
BsiHKAI GWGCWC 3 cut(s) 634, 763, 846
BsiHKCI CYCGRG 1 cut(s) 947
BsiSI CCGG 1 cut(s) 938
BslFI GGGAC 2 cut(s) 551, 895
BslI CCNNNNNNNGG 2 cut(s) 32, 162
BsmAI GTCTC 3 cut(s) 208, 873, 1051
BsmBI CGTCTC 1 cut(s) 208
BsmFI GGGAC 2 cut(s) 551, 895
BsnI GGCC 1 cut(s) 195
BsoBI CYCGRG 1 cut(s) 947
Bsp120I GGGCCC 1 cut(s) 193
Bsp1286I GDGCHC 6 cut(s) 130, 197, 634, 763, 846, 1078
Bsp143I GATC 5 cut(s) 103, 728, 923, 991, 1096
BspACI CCGC 2 cut(s) 51, 435
BspANI GGCC 1 cut(s) 195
BspCNI CTCAG 7 cut(s) 172, 883, 894, 919, 988, 1015, 1114
BspHI TCATGA 1 cut(s) 238
BspLI GGNNCC 4 cut(s) 127, 173, 195, 439
BspMAI CTGCAG 1 cut(s) 366
BspMI ACCTGC 1 cut(s) 602
BspOI GCTAGC 1 cut(s) 1022
BspPI GGATC 2 cut(s) 736, 999
BspT107I GGYRCC 3 cut(s) 125, 171, 437
BsrI ACTGG 2 cut(s) 419, 563
BssECI CCNNGG 3 cut(s) 121, 129, 829
BssMI GATC 5 cut(s) 103, 728, 923, 991, 1096
BssNI GRCGYC 2 cut(s) 142, 172
Bst2UI CCWGG 3 cut(s) 122, 131, 831
Bst4CI ACNGT 2 cut(s) 32, 850
Bst6I CTCTTC 1 cut(s) 453
BstACI GRCGYC 2 cut(s) 142, 172
BstC8I GCNNGC 6 cut(s) 56, 433, 698, 702, 750, 1020
BstDEI CTNAG 9 cut(s) 159, 464, 539, 870, 902, 927, 975, 1023, 1122
BstENI CCTNNNNNAGG 1 cut(s) 160
BstF5I GGATG 3 cut(s) 65, 286, 680
BstH2I RGCGCY 1 cut(s) 175
BstHHI GCGC 1 cut(s) 174
BstKTI GATC 5 cut(s) 106, 731, 926, 994, 1099
BstMAI GTCTC 3 cut(s) 208, 873, 1051
BstMBI GATC 5 cut(s) 103, 728, 923, 991, 1096
BstMWI GCNNNNNNNGC 3 cut(s) 254, 437, 758
BstNI CCWGG 3 cut(s) 122, 131, 831
BstNSI RCATGY 1 cut(s) 752
BstPAI GACNNNNGTC 1 cut(s) 33
BstSCI CCNGG 3 cut(s) 120, 129, 829
BstSFI CTRYAG 1 cut(s) 362
BstSLI GKGCMC 2 cut(s) 130, 197
BstV1I GCAGC 1 cut(s) 35
BsuRI GGCC 1 cut(s) 195
BtsCI GGATG 3 cut(s) 65, 286, 680
BtsIMutI CAGTG 2 cut(s) 846, 1092
BveI ACCTGC 1 cut(s) 602
Cac8I GCNNGC 6 cut(s) 56, 433, 698, 702, 750, 1020
CaiI CAGNNNCTG 1 cut(s) 404
CciI TCATGA 1 cut(s) 238
CfoI GCGC 1 cut(s) 174
Cfr13I GGNCC 2 cut(s) 193, 194
CseI GACGC 1 cut(s) 150
Csp6I GTAC 2 cut(s) 42, 1116
CviAII CATG 4 cut(s) 208, 239, 749, 1042
CviQI GTAC 2 cut(s) 42, 1116
DdeI CTNAG 9 cut(s) 159, 464, 539, 870, 902, 927, 975, 1023, 1122
DinI GGCGCC 1 cut(s) 173
DpnI GATC 5 cut(s) 105, 730, 925, 993, 1098
DpnII GATC 5 cut(s) 103, 728, 923, 991, 1096
DraI TTTAAA 1 cut(s) 1134
Eam1104I CTCTTC 1 cut(s) 453
EarI CTCTTC 1 cut(s) 453
Ecl136II GAGCTC 1 cut(s) 844
Eco24I GRGCYC 3 cut(s) 197, 846, 1078
Eco53kI GAGCTC 1 cut(s) 844
Eco57I CTGAAG 1 cut(s) 326
Eco88I CYCGRG 1 cut(s) 947
EcoICRI GAGCTC 1 cut(s) 844
EcoNI CCTNNNNNAGG 1 cut(s) 160
EcoRII CCWGG 3 cut(s) 120, 129, 829
EcoT38I GRGCYC 3 cut(s) 197, 846, 1078
EgeI GGCGCC 1 cut(s) 173
EheI GGCGCC 1 cut(s) 173
Esp3I CGTCTC 1 cut(s) 208
FaeI CATG 4 cut(s) 211, 242, 752, 1045
FalI AAGNNNNNCTT 2 cut(s) 795, 827
FaqI GGGAC 2 cut(s) 551, 895
FatI CATG 4 cut(s) 207, 238, 748, 1041
Fnu4HI GCNGC 2 cut(s) 49, 52
FokI GGATG 3 cut(s) 52, 293, 667
FriOI GRGCYC 3 cut(s) 197, 846, 1078
Fsp4HI GCNGC 2 cut(s) 49, 52
FspBI CTAG 1 cut(s) 1019
GlaI GCGC 1 cut(s) 173
GluI GCNGC 2 cut(s) 49, 52
GsuI CTGGAG 1 cut(s) 104
HaeII RGCGCY 1 cut(s) 175
HaeIII GGCC 1 cut(s) 195
HapII CCGG 1 cut(s) 938
HgaI GACGC 1 cut(s) 150
HhaI GCGC 1 cut(s) 174
Hin1I GRCGYC 2 cut(s) 142, 172
Hin1II CATG 4 cut(s) 211, 242, 752, 1045
Hin6I GCGC 1 cut(s) 172
HinP1I GCGC 1 cut(s) 172
HincII GTYRAC 1 cut(s) 493
HindII GTYRAC 1 cut(s) 493
HinfI GANTC 7 cut(s) 5, 185, 224, 242, 494, 641, 908
HpaII CCGG 1 cut(s) 938
HphI GGTGA 5 cut(s) 15, 139, 219, 382, 998
Hpy166II GTNNAC 1 cut(s) 493
Hpy188III TCNNGA 6 cut(s) 221, 239, 551, 743, 839, 949
Hpy8I GTNNAC 1 cut(s) 493
Hpy99I CGWCG 3 cut(s) 32, 78, 144
HpyAV CCTTC 3 cut(s) 350, 683, 812
HpyCH4III ACNGT 2 cut(s) 32, 850
HpyCH4V TGCA 7 cut(s) 364, 374, 380, 597, 704, 792, 1086
HpyF10VI GCNNNNNNNGC 3 cut(s) 254, 437, 758
HpyF3I CTNAG 9 cut(s) 159, 464, 539, 870, 902, 927, 975, 1023, 1122
Hsp92I GRCGYC 2 cut(s) 142, 172
Hsp92II CATG 4 cut(s) 211, 242, 752, 1045
HspAI GCGC 1 cut(s) 172
KasI GGCGCC 1 cut(s) 171
Kzo9I GATC 5 cut(s) 103, 728, 923, 991, 1096
LmnI GCTCC 3 cut(s) 85, 123, 216
Lsp1109I GCAGC 1 cut(s) 35
LweI GCATC 4 cut(s) 389, 552, 779, 1005
MaeI CTAG 1 cut(s) 1019
MaeIII GTNAC 2 cut(s) 577, 782
MalI GATC 5 cut(s) 105, 730, 925, 993, 1098
MboI GATC 5 cut(s) 103, 728, 923, 991, 1096
MboII GAAGA 4 cut(s) 440, 597, 698, 1024
MhlI GDGCHC 6 cut(s) 130, 197, 634, 763, 846, 1078
MluCI AATT 4 cut(s) 135, 330, 352, 531
Mly113I GGCGCC 1 cut(s) 172
MlyI GAGTC 5 cut(s) 179, 218, 251, 488, 917
MmeI TCCRAC 6 cut(s) 17, 63, 207, 238, 435, 987
MroXI GAANNNNTTC 1 cut(s) 807
MseI TTAA 4 cut(s) 534, 587, 813, 1133
MspA1I CMGCKG 1 cut(s) 617
MspI CCGG 1 cut(s) 938
MspR9I CCNGG 3 cut(s) 122, 131, 831
MvaI CCWGG 3 cut(s) 122, 131, 831
MwoI GCNNNNNNNGC 3 cut(s) 254, 437, 758
NarI GGCGCC 1 cut(s) 172
NdeII GATC 5 cut(s) 103, 728, 923, 991, 1096
NheI GCTAGC 1 cut(s) 1018
NlaIII CATG 4 cut(s) 211, 242, 752, 1045
NlaIV GGNNCC 4 cut(s) 127, 173, 195, 439
NmuCI GTSAC 1 cut(s) 782
NspI RCATGY 1 cut(s) 752
PaeI GCATGC 1 cut(s) 752
PaeR7I CTCGAG 1 cut(s) 947
PagI TCATGA 1 cut(s) 238
PcsI WCGNNNNNNNCGW 1 cut(s) 228
PdmI GAANNNNTTC 1 cut(s) 807
PfeI GAWTC 2 cut(s) 5, 641
PkrI GCNGC 2 cut(s) 50, 53
PleI GAGTC 5 cut(s) 179, 218, 250, 488, 916
PluTI GGCGCC 1 cut(s) 175
PpsI GAGTC 5 cut(s) 179, 218, 250, 488, 916
PshAI GACNNNNGTC 1 cut(s) 33
Psp124BI GAGCTC 1 cut(s) 846
Psp6I CCWGG 3 cut(s) 120, 129, 829
PspGI CCWGG 3 cut(s) 120, 129, 829
PspN4I GGNNCC 4 cut(s) 127, 173, 195, 439
PspOMI GGGCCC 1 cut(s) 193
PspPI GGNCC 2 cut(s) 193, 194
PstI CTGCAG 1 cut(s) 366
PstNI CAGNNNCTG 1 cut(s) 404
PvuII CAGCTG 1 cut(s) 617
RsaI GTAC 2 cut(s) 43, 1117
RsaNI GTAC 2 cut(s) 42, 1116
SacI GAGCTC 1 cut(s) 846
SaqAI TTAA 4 cut(s) 534, 587, 813, 1133
SatI GCNGC 2 cut(s) 49, 52
Sau3AI GATC 5 cut(s) 103, 728, 923, 991, 1096
Sau96I GGNCC 2 cut(s) 193, 194
ScaI AGTACT 1 cut(s) 43
SchI GAGTC 5 cut(s) 179, 218, 251, 488, 917
ScrFI CCNGG 3 cut(s) 122, 131, 831
SduI GDGCHC 6 cut(s) 130, 197, 634, 763, 846, 1078
SfaNI GCATC 4 cut(s) 389, 552, 779, 1005
SfcI CTRYAG 1 cut(s) 362
SfoI GGCGCC 1 cut(s) 173
Sfr274I CTCGAG 1 cut(s) 947
SlaI CTCGAG 1 cut(s) 947
SmlI CTYRAG 3 cut(s) 839, 947, 1054
SmoI CTYRAG 3 cut(s) 839, 947, 1054
SphI GCATGC 1 cut(s) 752
Sse9I AATT 4 cut(s) 135, 330, 352, 531
SsiI CCGC 2 cut(s) 51, 435
SspDI GGCGCC 1 cut(s) 171
SspI AATATT 1 cut(s) 955
SspMI CTAG 1 cut(s) 1019
SstI GAGCTC 1 cut(s) 846
StyD4I CCNGG 3 cut(s) 120, 129, 829
TaaI ACNGT 2 cut(s) 32, 850
TaqI TCGA 3 cut(s) 139, 742, 948
TasI AATT 4 cut(s) 135, 330, 352, 531
TatI WGTACW 1 cut(s) 41
TauI GCSGC 1 cut(s) 54
TfiI GAWTC 2 cut(s) 5, 641
Tru1I TTAA 4 cut(s) 534, 587, 813, 1133
Tru9I TTAA 4 cut(s) 534, 587, 813, 1133
TscAI CASTG 2 cut(s) 853, 1099
TseFI GTSAC 1 cut(s) 782
TseI GCWGC 1 cut(s) 48
Tsp45I GTSAC 1 cut(s) 782
TspDTI ATGAA 1 cut(s) 227
TspGWI ACGGA 2 cut(s) 58, 62
TspRI CASTG 2 cut(s) 853, 1099
XagI CCTNNNNNAGG 1 cut(s) 160
XapI RAATTY 2 cut(s) 135, 352
XceI RCATGY 1 cut(s) 752
XhoI CTCGAG 1 cut(s) 947
XmnI GAANNNNTTC 1 cut(s) 807
XspI CTAG 1 cut(s) 1019
ZrmI AGTACT 1 cut(s) 43
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.