Rh3BG248900

Ubiquitin-like domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3B
OG0017872
Physical Location & Seq
Forward (+)
23696993 .. 23701258
4266 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3BG248900.1

Sequence Viewer

Length: 570 bp
ATGCAGATTTTCGTGAAAACTCTAACTGGGAAGACCATCACTCTCGAGGTTGAGAGCAGCGACACCATCGATAATGTCAAAGCCAAGATCCAGGATAAGGAAGGCATCCCTCCTGATCAACAGAGATTGATTTTTGCCGGTAAGCAATTGGAAGATGGTAGATCTCTTGCAGATTATAACATCCAAAAGGAGTCAACTCTTCACCTGGTTTTGAGGCTGAGGGGAGGAACTATGATTAAGGTGAAGACTCTTACCGGGAAAGAAATTGAGATTGACATTGAACCGACTGACACCATTGACCGAATTAAGGAAAGGGTTGAGGAGAAAGAGGGAATTCCTCCGGTGCAACAAAGGGATGAAACTTCGGTCACTTTCAGACTCATTCCAGCCTTCCCCACATTCAACCTATTCCCAAGTCCTGAATTCCCATTGCTGTGCAATAATAATATCCAAGGAAGAAACTTCAAACTATGGAAGGCATTTCTCCATTTCCTGCTGTATATGACTGTCGGCCAGACTGAGACAGTCAGAACCAAGTCTTCCGAATACGCCACAAATACACCAGACTGA
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
ubiquitin

Protein Analysis

189

Amino Acids

21.57

Weight (kDa)

5.82

Isoelectric Point (pI)

42.95

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Rad60-SLD PF11976 1 - 71 1.8e-16 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 3 - 74 1.9e-31 Ubiquitin family
ubiquitin PF00240 79 - 118 1.4e-10 Ubiquitin family
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: OG0017872)

Species Orthologous Gene IDs
fragaria_vesca FvH4_4g20951
rosa_chinensis RchiOBHm_Chr2g0161521 RchiOBHm_Chr3g0478151
rosa_multiflora Rmu_sc0007744.1_g000001
rosa_roxburghii Rroxscaffold_1G00053410
rosa_samantha Rh3AG215300 Rh3BG248900 Rh5AG180600 Rh5BG179200
rosa_wichuraiana Rw2G046050 Rw3G019570

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 177
AclWI GGATC 1 cut(s) 82
AcoI YGGCCR 1 cut(s) 511
AcsI RAATTY 2 cut(s) 333, 422
AfiI CCNNNNNNNGG 2 cut(s) 97, 307
AgsI TTSAA 3 cut(s) 281, 403, 466
AjnI CCWGG 2 cut(s) 90, 204
Alw26I GTCTC 1 cut(s) 515
AlwI GGATC 1 cut(s) 82
Ama87I CYCGRG 1 cut(s) 44
AoxI GGCC 1 cut(s) 511
ApeKI GCWGC 1 cut(s) 57
ApoI RAATTY 2 cut(s) 333, 422
AsuC2I CCSGG 1 cut(s) 256
AsuHPI GGTGA 2 cut(s) 194, 253
AvaI CYCGRG 1 cut(s) 44
BbsI GAAGAC 3 cut(s) 38, 251, 531
BbvCI CCTCAGC 1 cut(s) 218
BbvI GCAGC 1 cut(s) 69
BccI CCATC 3 cut(s) 44, 74, 149
BciT130I CCWGG 2 cut(s) 92, 206
BclI TGATCA 1 cut(s) 115
BcnI CCSGG 1 cut(s) 256
BcoDI GTCTC 1 cut(s) 515
BglII AGATCT 1 cut(s) 161
BisI GCNGC 1 cut(s) 58
BlsI GCNGC 1 cut(s) 59
Bme1390I CCNGG 3 cut(s) 92, 206, 256
BmeT110I CYCGRG 1 cut(s) 44
BmrFI CCNGG 3 cut(s) 92, 206, 256
BmrI ACTGGG 1 cut(s) 36
BmsI GCATC 1 cut(s) 114
BmuI ACTGGG 1 cut(s) 36
BpiI GAAGAC 3 cut(s) 38, 251, 531
Bpu10I CCTNAGC 1 cut(s) 218
BpuMI CCSGG 1 cut(s) 256
Bsa29I ATCGAT 1 cut(s) 69
BsaJI CCNNGG 1 cut(s) 451
BsaWI WCCGGW 1 cut(s) 340
Bsc4I CCNNNNNNNGG 2 cut(s) 97, 307
Bse118I RCCGGY 1 cut(s) 137
Bse1I ACTGG 1 cut(s) 31
Bse3DI GCAATG 1 cut(s) 428
BseBI CCWGG 2 cut(s) 92, 206
BseCI ATCGAT 1 cut(s) 69
BseDI CCNNGG 1 cut(s) 451
BseGI GGATG 3 cut(s) 105, 180, 361
BseLI CCNNNNNNNGG 2 cut(s) 97, 307
BseMI GCAATG 1 cut(s) 428
BseMII CTCAG 2 cut(s) 209, 510
BseNI ACTGG 1 cut(s) 31
BseRI GAGGAG 1 cut(s) 335
BseXI GCAGC 1 cut(s) 69
BshFI GGCC 1 cut(s) 513
BshVI ATCGAT 1 cut(s) 69
BsiHKCI CYCGRG 1 cut(s) 44
BsiSI CCGG 3 cut(s) 138, 255, 341
BslI CCNNNNNNNGG 2 cut(s) 97, 307
BsmAI GTCTC 1 cut(s) 515
BsnI GGCC 1 cut(s) 513
BsoBI CYCGRG 1 cut(s) 44
Bsp143I GATC 3 cut(s) 87, 115, 161
BspANI GGCC 1 cut(s) 513
BspCNI CTCAG 2 cut(s) 210, 511
BspDI ATCGAT 1 cut(s) 69
BspPI GGATC 1 cut(s) 82
BsrDI GCAATG 1 cut(s) 428
BsrFI RCCGGY 1 cut(s) 137
BsrI ACTGG 1 cut(s) 31
BssAI RCCGGY 1 cut(s) 137
BssECI CCNNGG 1 cut(s) 451
BssMI GATC 3 cut(s) 87, 115, 161
BssT1I CCWWGG 1 cut(s) 451
Bst2UI CCWGG 2 cut(s) 92, 206
Bst4CI ACNGT 2 cut(s) 508, 526
Bst6I CTCTTC 1 cut(s) 204
BstDEI CTNAG 2 cut(s) 218, 519
BstF5I GGATG 3 cut(s) 105, 180, 361
BstKTI GATC 3 cut(s) 90, 118, 164
BstMAI GTCTC 1 cut(s) 515
BstMBI GATC 3 cut(s) 87, 115, 161
BstNI CCWGG 2 cut(s) 92, 206
BstSCI CCNGG 3 cut(s) 90, 204, 254
BstV1I GCAGC 1 cut(s) 69
BstV2I GAAGAC 3 cut(s) 38, 251, 531
BstX2I RGATCY 2 cut(s) 87, 161
BstYI RGATCY 2 cut(s) 87, 161
Bsu15I ATCGAT 1 cut(s) 69
BsuRI GGCC 1 cut(s) 513
BsuTUI ATCGAT 1 cut(s) 69
BtsCI GGATG 3 cut(s) 105, 180, 361
Cfr10I RCCGGY 1 cut(s) 137
ClaI ATCGAT 1 cut(s) 69
CsiI ACCWGGT 1 cut(s) 204
CviJI RGCY 4 cut(s) 83, 217, 389, 513
CviKI_1 RGCY 4 cut(s) 83, 217, 389, 513
DdeI CTNAG 2 cut(s) 218, 519
DpnI GATC 3 cut(s) 89, 117, 163
DpnII GATC 3 cut(s) 87, 115, 161
EaeI YGGCCR 1 cut(s) 511
Eam1104I CTCTTC 1 cut(s) 204
EarI CTCTTC 1 cut(s) 204
Eco130I CCWWGG 1 cut(s) 451
Eco88I CYCGRG 1 cut(s) 44
EcoRI GAATTC 2 cut(s) 333, 422
EcoRII CCWGG 2 cut(s) 90, 204
EcoT14I CCWWGG 1 cut(s) 451
ErhI CCWWGG 1 cut(s) 451
FaiI YATR 5 cut(s) 177, 233, 472, 501, 503
FbaI TGATCA 1 cut(s) 115
Fnu4HI GCNGC 1 cut(s) 58
FokI GGATG 3 cut(s) 92, 167, 368
Fsp4HI GCNGC 1 cut(s) 58
GluI GCNGC 1 cut(s) 58
HaeIII GGCC 1 cut(s) 513
HapII CCGG 3 cut(s) 138, 255, 341
HincII GTYRAC 1 cut(s) 195
HindII GTYRAC 1 cut(s) 195
HinfI GANTC 3 cut(s) 191, 247, 378
HpaII CCGG 3 cut(s) 138, 255, 341
HphI GGTGA 2 cut(s) 194, 253
Hpy166II GTNNAC 1 cut(s) 195
Hpy188I TCNGA 3 cut(s) 377, 530, 544
Hpy188III TCNNGA 4 cut(s) 13, 44, 113, 419
Hpy8I GTNNAC 1 cut(s) 195
HpyAV CCTTC 3 cut(s) 95, 400, 469
HpyCH4III ACNGT 2 cut(s) 508, 526
HpyCH4V TGCA 4 cut(s) 4, 170, 346, 438
HpyF3I CTNAG 2 cut(s) 218, 519
Ksp22I TGATCA 1 cut(s) 115
Kzo9I GATC 3 cut(s) 87, 115, 161
Lsp1109I GCAGC 1 cut(s) 69
LweI GCATC 1 cut(s) 114
MabI ACCWGGT 1 cut(s) 204
MaeIII GTNAC 1 cut(s) 367
MalI GATC 3 cut(s) 89, 117, 163
MboI GATC 3 cut(s) 87, 115, 161
MboII GAAGA 6 cut(s) 43, 164, 191, 256, 468, 531
MfeI CAATTG 1 cut(s) 146
MflI RGATCY 2 cut(s) 87, 161
MluCI AATT 5 cut(s) 146, 264, 303, 333, 422
MlyI GAGTC 3 cut(s) 200, 241, 372
MnlI CCTC 8 cut(s) 40, 120, 207, 213, 218, 313, 322, 348
MseI TTAA 2 cut(s) 237, 306
MslI CAYNNNNRTG 1 cut(s) 433
MspI CCGG 3 cut(s) 138, 255, 341
MspR9I CCNGG 3 cut(s) 92, 206, 256
MunI CAATTG 1 cut(s) 146
MvaI CCWGG 2 cut(s) 92, 206
NciI CCSGG 1 cut(s) 256
NdeII GATC 3 cut(s) 87, 115, 161
NmuCI GTSAC 1 cut(s) 367
PaeR7I CTCGAG 1 cut(s) 44
PfoI TCCNGGA 1 cut(s) 90
PkrI GCNGC 1 cut(s) 59
PleI GAGTC 3 cut(s) 199, 241, 372
PpsI GAGTC 3 cut(s) 199, 241, 372
PsiI TTATAA 1 cut(s) 177
Psp6I CCWGG 2 cut(s) 90, 204
PspGI CCWGG 2 cut(s) 90, 204
PsuI RGATCY 2 cut(s) 87, 161
RseI CAYNNNNRTG 1 cut(s) 433
SaqAI TTAA 2 cut(s) 237, 306
SatI GCNGC 1 cut(s) 58
Sau3AI GATC 3 cut(s) 87, 115, 161
SchI GAGTC 3 cut(s) 200, 241, 372
ScrFI CCNGG 3 cut(s) 92, 206, 256
SetI ASST 4 cut(s) 51, 207, 243, 408
SexAI ACCWGGT 1 cut(s) 204
SfaNI GCATC 1 cut(s) 114
Sfr274I CTCGAG 1 cut(s) 44
SlaI CTCGAG 1 cut(s) 44
SmiMI CAYNNNNRTG 1 cut(s) 433
SmlI CTYRAG 1 cut(s) 44
SmoI CTYRAG 1 cut(s) 44
Sse9I AATT 5 cut(s) 146, 264, 303, 333, 422
StyD4I CCNGG 3 cut(s) 90, 204, 254
StyI CCWWGG 1 cut(s) 451
TaaI ACNGT 2 cut(s) 508, 526
TaqI TCGA 2 cut(s) 45, 69
TaqII GACCGA 2 cut(s) 315, 355
TasI AATT 5 cut(s) 146, 264, 303, 333, 422
Tru1I TTAA 2 cut(s) 237, 306
Tru9I TTAA 2 cut(s) 237, 306
TseFI GTSAC 1 cut(s) 367
TseI GCWGC 1 cut(s) 57
Tsp45I GTSAC 1 cut(s) 367
TspDTI ATGAA 1 cut(s) 372
XapI RAATTY 2 cut(s) 333, 422
XhoI CTCGAG 1 cut(s) 44
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.