MD03G1210400.v1.1

Ubiquitin family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr03
OG0015785
Physical Location & Seq
Forward (+)
28951413 .. 28952626
1214 bp
Loading structure...
UTR
Exon/CDS
Intron
MD03G1210400.v1.1.491

Sequence Viewer

Length: 507 bp
ATGCCAAATCATTCATCGTTGAAAGCAAAGGCATATAGAAGTTCTATGCAGATCTTTGTGAAAACCCTAACCGGAAAGACCATCACCCTCGAGGTTGAAAGCTCCGACACCATTGACAATGTCAAAGCCAAGATCCAAGACAAGGAAGGTATTCCCCCAGACCAGCAAAGGCTGATATTTGCCGGCAAGCAGCTCGAGGACGGCCGCACCCTCGCCGACTACAACATCCAGAAGGAGTCCACCCTCCACCTAGTTCTCCGTCTCCGTGGTGGTATGCAAATCTTCGTCAAGACCCTTACCGGGAAGACCATTACTTTGGAAGTGGAAAGCTCCGACACTATTGACAATGTTAAGGCTAAAATCCAGGACAAGGAGGGCATCCCTCCGGACCAGCAGAGGTTGATCTTTGCAGGCAAGCAGCTCGAGGACGGAAGGACCCTTGCCGACTACAACATCCAGAAGGAGTCCACCCTTCATCTTGTACTCCGCCTCCGCGGTGGTTTTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03320 map03320
Pfam Domains
Protein Families
ubiquitin

Protein Analysis

169

Amino Acids

18.84

Weight (kDa)

9.07

Isoelectric Point (pI)

33.4

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Rad60-SLD PF11976 16 - 86 1.8e-17 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 18 - 89 2.2e-32 Ubiquitin family
Rad60-SLD PF11976 92 - 162 1.8e-17 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 94 - 165 2.2e-32 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: OG0015785)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G05050 AT4G05320
fragaria_vesca FvH4_6g15632
malus_domestica MD03G1210400.v1.1
pyrus_communis pycom12g11960
rosa_chinensis RchiOBHm_Chr7g0210981 RchiOBHm_Chr7g0213511
rosa_roxburghii Rroxscaffold_3G00245820
rosa_samantha Rh7AG255300 Rh7AG275800 Rh7CG271900 Rh7CG294700
rosa_wichuraiana Rw0G023470 Rw7G021840 Rw7G023830

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AbsI CCTCGAGG 1 cut(s) 89
AccII CGCG 1 cut(s) 495
AccIII TCCGGA 1 cut(s) 385
AciI CCGC 4 cut(s) 205, 487, 493, 495
AclWI GGATC 1 cut(s) 127
AcoI YGGCCR 1 cut(s) 202
AfaI GTAC 1 cut(s) 483
AfiI CCNNNNNNNGG 3 cut(s) 142, 300, 370
AgsI TTSAA 2 cut(s) 22, 98
AjnI CCWGG 1 cut(s) 363
AluBI AGCT 4 cut(s) 102, 193, 330, 421
AluI AGCT 4 cut(s) 102, 193, 330, 421
Alw26I GTCTC 1 cut(s) 266
AlwI GGATC 1 cut(s) 127
Ama87I CYCGRG 3 cut(s) 89, 194, 422
Aor13HI TCCGGA 1 cut(s) 385
AoxI GGCC 1 cut(s) 202
ApeKI GCWGC 2 cut(s) 190, 418
ArsI GACNNNNNNTTYG 2 cut(s) 298, 330
Asp700I GAANNNNTTC 1 cut(s) 150
AspS9I GGNCC 2 cut(s) 388, 435
AsuC2I CCSGG 1 cut(s) 301
AsuHPI GGTGA 1 cut(s) 76
AvaI CYCGRG 3 cut(s) 89, 194, 422
AvaII GGWCC 2 cut(s) 388, 435
BbsI GAAGAC 1 cut(s) 311
BbvI GCAGC 2 cut(s) 202, 430
BccI CCATC 1 cut(s) 89
BceAI ACGGC 1 cut(s) 217
BcgI CGANNNNNNTGC 4 cut(s) 175, 209, 403, 437
BciT130I CCWGG 1 cut(s) 365
BcnI CCSGG 1 cut(s) 301
BcoDI GTCTC 1 cut(s) 266
BfaI CTAG 1 cut(s) 251
BglII AGATCT 1 cut(s) 51
BisI GCNGC 3 cut(s) 191, 205, 419
BlsI GCNGC 3 cut(s) 192, 206, 420
Bme1390I CCNGG 2 cut(s) 301, 365
Bme18I GGWCC 2 cut(s) 388, 435
BmeT110I CYCGRG 3 cut(s) 89, 194, 422
BmgT120I GGNCC 2 cut(s) 388, 435
BmiI GGNNCC 1 cut(s) 437
BmrFI CCNGG 2 cut(s) 301, 365
BmsI GCATC 1 cut(s) 387
BpiI GAAGAC 1 cut(s) 311
BpuMI CCSGG 1 cut(s) 301
BsaJI CCNNGG 2 cut(s) 265, 493
BsaWI WCCGGW 2 cut(s) 71, 385
BsaXI ACNNNNNCTCC 2 cut(s) 474, 504
Bsc4I CCNNNNNNNGG 3 cut(s) 142, 300, 370
Bse118I RCCGGY 1 cut(s) 182
BseAI TCCGGA 1 cut(s) 385
BseBI CCWGG 1 cut(s) 365
BseDI CCNNGG 2 cut(s) 265, 493
BseGI GGATG 3 cut(s) 225, 378, 453
BseLI CCNNNNNNNGG 3 cut(s) 142, 300, 370
BseX3I CGGCCG 1 cut(s) 202
BseXI GCAGC 2 cut(s) 202, 430
Bsh1236I CGCG 1 cut(s) 495
Bsh1285I CGRYCG 1 cut(s) 205
BshFI GGCC 1 cut(s) 204
BsiEI CGRYCG 1 cut(s) 205
BsiHKCI CYCGRG 3 cut(s) 89, 194, 422
BsiSI CCGG 4 cut(s) 72, 183, 300, 386
BslI CCNNNNNNNGG 3 cut(s) 142, 300, 370
BsmAI GTCTC 1 cut(s) 266
BsmBI CGTCTC 1 cut(s) 266
BsnI GGCC 1 cut(s) 204
BsoBI CYCGRG 3 cut(s) 89, 194, 422
Bsp13I TCCGGA 1 cut(s) 385
Bsp143I GATC 3 cut(s) 51, 132, 402
BspACI CCGC 4 cut(s) 205, 487, 493, 495
BspANI GGCC 1 cut(s) 204
BspEI TCCGGA 1 cut(s) 385
BspFNI CGCG 1 cut(s) 495
BspLI GGNNCC 1 cut(s) 437
BspPI GGATC 1 cut(s) 127
BsrFI RCCGGY 1 cut(s) 182
BssAI RCCGGY 1 cut(s) 182
BssECI CCNNGG 2 cut(s) 265, 493
BssMI GATC 3 cut(s) 51, 132, 402
Bst2UI CCWGG 1 cut(s) 365
BstC8I GCNNGC 4 cut(s) 184, 188, 412, 416
BstDSI CCRYGG 2 cut(s) 265, 493
BstF5I GGATG 3 cut(s) 225, 378, 453
BstFNI CGCG 1 cut(s) 495
BstKTI GATC 3 cut(s) 54, 135, 405
BstMAI GTCTC 1 cut(s) 266
BstMBI GATC 3 cut(s) 51, 132, 402
BstMCI CGRYCG 1 cut(s) 205
BstNI CCWGG 1 cut(s) 365
BstSCI CCNGG 2 cut(s) 299, 363
BstUI CGCG 1 cut(s) 495
BstV1I GCAGC 2 cut(s) 202, 430
BstV2I GAAGAC 1 cut(s) 311
BstX2I RGATCY 2 cut(s) 51, 132
BstXI CCANNNNNNTGG 1 cut(s) 316
BstYI RGATCY 2 cut(s) 51, 132
BstZI CGGCCG 1 cut(s) 202
BsuRI GGCC 1 cut(s) 204
BtgI CCRYGG 2 cut(s) 265, 493
BtsCI GGATG 3 cut(s) 225, 378, 453
Cac8I GCNNGC 4 cut(s) 184, 188, 412, 416
Cfr10I RCCGGY 1 cut(s) 182
Cfr13I GGNCC 2 cut(s) 388, 435
Cfr42I CCGCGG 1 cut(s) 496
Csp6I GTAC 1 cut(s) 482
CviJI RGCY 8 cut(s) 102, 128, 172, 193, 204, 330, 356, 421
CviKI_1 RGCY 8 cut(s) 102, 128, 172, 193, 204, 330, 356, 421
CviQI GTAC 1 cut(s) 482
DpnI GATC 3 cut(s) 53, 134, 404
DpnII GATC 3 cut(s) 51, 132, 402
EaeI YGGCCR 1 cut(s) 202
EagI CGGCCG 1 cut(s) 202
EciI GGCGGA 1 cut(s) 476
EclXI CGGCCG 1 cut(s) 202
Eco47I GGWCC 2 cut(s) 388, 435
Eco52I CGGCCG 1 cut(s) 202
Eco88I CYCGRG 3 cut(s) 89, 194, 422
EcoO109I RGGNCCY 1 cut(s) 435
EcoRII CCWGG 1 cut(s) 363
Esp3I CGTCTC 1 cut(s) 266
FaiI YATR 4 cut(s) 34, 36, 47, 275
Fnu4HI GCNGC 3 cut(s) 191, 205, 419
FokI GGATG 3 cut(s) 212, 365, 440
Fsp4HI GCNGC 3 cut(s) 191, 205, 419
FspBI CTAG 1 cut(s) 251
GluI GCNGC 3 cut(s) 191, 205, 419
HaeIII GGCC 1 cut(s) 204
HapII CCGG 4 cut(s) 72, 183, 300, 386
HinfI GANTC 2 cut(s) 236, 464
HpaII CCGG 4 cut(s) 72, 183, 300, 386
HphI GGTGA 1 cut(s) 76
Hpy166II GTNNAC 2 cut(s) 240, 468
Hpy188I TCNGA 2 cut(s) 106, 334
Hpy188III TCNNGA 4 cut(s) 229, 289, 386, 457
Hpy8I GTNNAC 2 cut(s) 240, 468
HpyAV CCTTC 5 cut(s) 140, 226, 426, 454, 482
HpyCH4V TGCA 3 cut(s) 49, 277, 410
Kpn2I TCCGGA 1 cut(s) 385
KroI GCCGGC 1 cut(s) 182
KroNI GCCGGC 1 cut(s) 184
KspI CCGCGG 1 cut(s) 496
Kzo9I GATC 3 cut(s) 51, 132, 402
LmnI GCTCC 2 cut(s) 107, 335
Lsp1109I GCAGC 2 cut(s) 202, 430
LweI GCATC 1 cut(s) 387
MaeI CTAG 1 cut(s) 251
MalI GATC 3 cut(s) 53, 134, 404
MboI GATC 3 cut(s) 51, 132, 402
MboII GAAGA 2 cut(s) 274, 316
MflI RGATCY 2 cut(s) 51, 132
MlyI GAGTC 2 cut(s) 245, 473
MmeI TCCRAC 2 cut(s) 129, 357
MroI TCCGGA 1 cut(s) 385
MroNI GCCGGC 1 cut(s) 182
MroXI GAANNNNTTC 1 cut(s) 150
MseI TTAA 1 cut(s) 351
MspA1I CMGCKG 1 cut(s) 495
MspI CCGG 4 cut(s) 72, 183, 300, 386
MspR9I CCNGG 2 cut(s) 301, 365
MvaI CCWGG 1 cut(s) 365
MvnI CGCG 1 cut(s) 495
NaeI GCCGGC 1 cut(s) 184
NciI CCSGG 1 cut(s) 301
NdeII GATC 3 cut(s) 51, 132, 402
NgoMIV GCCGGC 1 cut(s) 182
NlaIV GGNNCC 1 cut(s) 437
PaeR7I CTCGAG 3 cut(s) 89, 194, 422
PdiI GCCGGC 1 cut(s) 184
PdmI GAANNNNTTC 1 cut(s) 150
PflFI GACNNNGTC 1 cut(s) 119
PfoI TCCNGGA 1 cut(s) 363
PkrI GCNGC 3 cut(s) 192, 206, 420
PleI GAGTC 2 cut(s) 244, 472
PpsI GAGTC 2 cut(s) 244, 472
PpuMI RGGWCCY 1 cut(s) 435
Psp5II RGGWCCY 1 cut(s) 435
Psp6I CCWGG 1 cut(s) 363
PspGI CCWGG 1 cut(s) 363
PspN4I GGNNCC 1 cut(s) 437
PspPI GGNCC 2 cut(s) 388, 435
PspPPI RGGWCCY 1 cut(s) 435
PspXI VCTCGAGB 3 cut(s) 89, 194, 422
PsuI RGATCY 2 cut(s) 51, 132
PsyI GACNNNGTC 1 cut(s) 119
RsaI GTAC 1 cut(s) 483
RsaNI GTAC 1 cut(s) 482
SacII CCGCGG 1 cut(s) 496
SaqAI TTAA 1 cut(s) 351
SatI GCNGC 3 cut(s) 191, 205, 419
Sau3AI GATC 3 cut(s) 51, 132, 402
Sau96I GGNCC 2 cut(s) 388, 435
SchI GAGTC 2 cut(s) 245, 473
ScrFI CCNGG 2 cut(s) 301, 365
SetI ASST 8 cut(s) 96, 104, 151, 195, 252, 332, 401, 423
SfaNI GCATC 1 cut(s) 387
Sfr274I CTCGAG 3 cut(s) 89, 194, 422
Sfr303I CCGCGG 1 cut(s) 496
SgrBI CCGCGG 1 cut(s) 496
SinI GGWCC 2 cut(s) 388, 435
SlaI CTCGAG 3 cut(s) 89, 194, 422
SmlI CTYRAG 3 cut(s) 89, 194, 422
SmoI CTYRAG 3 cut(s) 89, 194, 422
SsiI CCGC 4 cut(s) 205, 487, 493, 495
SspMI CTAG 1 cut(s) 251
StyD4I CCNGG 2 cut(s) 299, 363
TaqI TCGA 3 cut(s) 90, 195, 423
TatI WGTACW 1 cut(s) 481
TauI GCSGC 1 cut(s) 207
Tru1I TTAA 1 cut(s) 351
Tru9I TTAA 1 cut(s) 351
TseI GCWGC 2 cut(s) 190, 418
TspDTI ATGAA 1 cut(s) 464
TspGWI ACGGA 3 cut(s) 248, 254, 444
Tth111I GACNNNGTC 1 cut(s) 119
VpaK11BI GGWCC 2 cut(s) 388, 435
XhoI CTCGAG 3 cut(s) 89, 194, 422
XmnI GAANNNNTTC 1 cut(s) 150
XspI CTAG 1 cut(s) 251
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.