pycom12g11960

Ubiquitin family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr12
OG0015785
Physical Location & Seq
Forward (+)
14408451 .. 14424380
15930 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom12g11960.1

Sequence Viewer

Length: 750 bp
ATGCAGATTTTTGTCAAAACCCTAACGGGGAAGACAATTACTCTCGAGGTCGAGAGCTCTGATACCATCGATAATGTGAAGGCCAAGATCCAGGATAAGGAGGGAATCCCACCAGACCAGCAGAGATTGATTTTCGCTGGTAAGCAATTGGAGGACGGAAGGACATTGGCGGATTACAACATCCAAAAGGAGTCTACCTTGCACTTGGTCCTGCGTCTCAGAGGTGGCATGCAGATTTTCGTGAAGACCCTTACGGGGAAGACCATAACTCTGGAGGTAGAGAGTTCCGATACTATTGACAATGTGAAGGCGAAGATTCAGGACAAGGAGGGCATTCCTCCGGATCAGCAGAGGCTCATCTTCGCCGGGAAGCAATTGGAGGATGGCCGGACCCTGGCGGATTATAATATCCAGAAGGAGTCAACTCTTCACCTTGTGCTCAGGCTTCGTGGTGGAATGCAGATATTCGTGAAGACCCTAACTGGGAAAACAATTACCCTGGAGGTTGAGAGCTCTGACACTATTGACAATGTCAAAGCGAAGATCCAGGATAAGGAAGGGATCCCACCGGACCAGCAGAGGCTGATCTTTGCTGGGAAACAGCTTGAGGATGGTCGCACCCTTGCAGATTATAACATCCAGAAAGAGTCTACCCTCCATCTTGTCCTTCGTCTCCGTGGCGCTTCCAGACATTTCGTTTCACCGACTCTTGTTGGCCGCACAATCCTCGGCTTCTCTTTCCCTATATAA
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

250

Amino Acids

27.87

Weight (kDa)

8.65

Isoelectric Point (pI)

30.89

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Rad60-SLD PF11976 1 - 71 4e-17 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 3 - 74 5.1e-32 Ubiquitin family
Rad60-SLD PF11976 77 - 147 4e-17 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 79 - 150 5.1e-32 Ubiquitin family
Rad60-SLD PF11976 153 - 223 4e-17 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 155 - 226 5.1e-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)
AanI TTATAA 2 cut(s) 405, 633
AccI GTMKAC 2 cut(s) 194, 650
AccIII TCCGGA 1 cut(s) 340
AciI CCGC 3 cut(s) 170, 398, 718
AclWI GGATC 5 cut(s) 82, 351, 538, 556, 569
AcoI YGGCCR 2 cut(s) 385, 715
AdeI CACNNNGTG 1 cut(s) 436
AfiI CCNNNNNNNGG 6 cut(s) 27, 97, 255, 394, 483, 553
AjnI CCWGG 4 cut(s) 90, 393, 498, 546
AluBI AGCT 3 cut(s) 57, 513, 604
AluI AGCT 3 cut(s) 57, 513, 604
Alw21I GWGCWC 3 cut(s) 59, 441, 515
Alw26I GTCTC 2 cut(s) 221, 677
AlwI GGATC 5 cut(s) 82, 351, 538, 556, 569
AlwNI CAGNNNCTG 1 cut(s) 583
Ama87I CYCGRG 1 cut(s) 44
Aor13HI TCCGGA 1 cut(s) 340
AoxI GGCC 3 cut(s) 81, 385, 715
AspLEI GCGC 1 cut(s) 683
AspS9I GGNCC 3 cut(s) 208, 390, 571
AsuC2I CCSGG 1 cut(s) 367
AsuHPI GGTGA 2 cut(s) 422, 693
AvaI CYCGRG 1 cut(s) 44
AvaII GGWCC 3 cut(s) 208, 390, 571
BamHI GGATCC 1 cut(s) 561
BanII GRGCYC 2 cut(s) 59, 515
BbsI GAAGAC 4 cut(s) 38, 251, 266, 479
Bbv12I GWGCWC 3 cut(s) 59, 441, 515
BccI CCATC 4 cut(s) 74, 377, 605, 666
BcgI CGANNNNNNTGC 2 cut(s) 709, 743
BciT130I CCWGG 4 cut(s) 92, 395, 500, 548
BcnI CCSGG 1 cut(s) 367
BcoDI GTCTC 2 cut(s) 221, 677
BfoI RGCGCY 1 cut(s) 684
BisI GCNGC 1 cut(s) 718
BlsI GCNGC 1 cut(s) 719
Bme1390I CCNGG 5 cut(s) 92, 367, 395, 500, 548
Bme18I GGWCC 3 cut(s) 208, 390, 571
BmeT110I CYCGRG 1 cut(s) 44
BmgT120I GGNCC 3 cut(s) 208, 390, 571
BmiI GGNNCC 2 cut(s) 392, 563
BmrFI CCNGG 5 cut(s) 92, 367, 395, 500, 548
BmrI ACTGGG 1 cut(s) 492
BmuI ACTGGG 1 cut(s) 492
BpiI GAAGAC 4 cut(s) 38, 251, 266, 479
BpmI CTGGAG 2 cut(s) 293, 521
Bpu10I CCTNAGC 1 cut(s) 440
BpuEI CTTGAG 1 cut(s) 626
BpuMI CCSGG 1 cut(s) 367
Bsa29I ATCGAT 1 cut(s) 69
BsaJI CCNNGG 4 cut(s) 393, 498, 676, 727
BsaWI WCCGGW 2 cut(s) 340, 568
Bsc4I CCNNNNNNNGG 6 cut(s) 27, 97, 255, 394, 483, 553
Bse1I ACTGG 1 cut(s) 487
BseAI TCCGGA 1 cut(s) 340
BseBI CCWGG 4 cut(s) 92, 395, 500, 548
BseCI ATCGAT 1 cut(s) 69
BseDI CCNNGG 4 cut(s) 393, 498, 676, 727
BseGI GGATG 4 cut(s) 180, 388, 616, 636
BseLI CCNNNNNNNGG 6 cut(s) 27, 97, 255, 394, 483, 553
BseMII CTCAG 2 cut(s) 232, 454
BseNI ACTGG 1 cut(s) 487
BseYI CCCAGC 1 cut(s) 593
BshFI GGCC 3 cut(s) 83, 387, 717
BshVI ATCGAT 1 cut(s) 69
BsiHKAI GWGCWC 3 cut(s) 59, 441, 515
BsiHKCI CYCGRG 1 cut(s) 44
BsiSI CCGG 4 cut(s) 341, 366, 388, 569
BslI CCNNNNNNNGG 6 cut(s) 27, 97, 255, 394, 483, 553
BsmAI GTCTC 2 cut(s) 221, 677
BsmBI CGTCTC 2 cut(s) 221, 677
BsmI GAATGC 2 cut(s) 333, 462
BsnI GGCC 3 cut(s) 83, 387, 717
BsoBI CYCGRG 1 cut(s) 44
Bsp1286I GDGCHC 3 cut(s) 59, 441, 515
Bsp13I TCCGGA 1 cut(s) 340
Bsp143I GATC 5 cut(s) 87, 343, 543, 561, 585
BspACI CCGC 3 cut(s) 170, 398, 718
BspANI GGCC 3 cut(s) 83, 387, 717
BspCNI CTCAG 2 cut(s) 231, 453
BspDI ATCGAT 1 cut(s) 69
BspEI TCCGGA 1 cut(s) 340
BspLI GGNNCC 2 cut(s) 392, 563
BspPI GGATC 5 cut(s) 82, 351, 538, 556, 569
BsrI ACTGG 1 cut(s) 487
BssECI CCNNGG 4 cut(s) 393, 498, 676, 727
BssMI GATC 5 cut(s) 87, 343, 543, 561, 585
Bst2UI CCWGG 4 cut(s) 92, 395, 500, 548
Bst6I CTCTTC 1 cut(s) 432
BstC8I GCNNGC 1 cut(s) 230
BstDEI CTNAG 2 cut(s) 218, 440
BstDSI CCRYGG 1 cut(s) 676
BstF5I GGATG 4 cut(s) 180, 388, 616, 636
BstH2I RGCGCY 1 cut(s) 684
BstHHI GCGC 1 cut(s) 683
BstKTI GATC 5 cut(s) 90, 346, 546, 564, 588
BstMAI GTCTC 2 cut(s) 221, 677
BstMBI GATC 5 cut(s) 87, 343, 543, 561, 585
BstNI CCWGG 4 cut(s) 92, 395, 500, 548
BstNSI RCATGY 1 cut(s) 232
BstSCI CCNGG 5 cut(s) 90, 365, 393, 498, 546
BstV2I GAAGAC 4 cut(s) 38, 251, 266, 479
BstX2I RGATCY 3 cut(s) 87, 543, 561
BstXI CCANNNNNNTGG 1 cut(s) 271
BstYI RGATCY 3 cut(s) 87, 543, 561
Bsu15I ATCGAT 1 cut(s) 69
BsuRI GGCC 3 cut(s) 83, 387, 717
BsuTUI ATCGAT 1 cut(s) 69
BtgI CCRYGG 1 cut(s) 676
BtsCI GGATG 4 cut(s) 180, 388, 616, 636
Cac8I GCNNGC 1 cut(s) 230
CaiI CAGNNNCTG 1 cut(s) 583
CfoI GCGC 1 cut(s) 683
Cfr13I GGNCC 3 cut(s) 208, 390, 571
ClaI ATCGAT 1 cut(s) 69
CseI GACGC 1 cut(s) 203
CviAII CATG 1 cut(s) 229
DdeI CTNAG 2 cut(s) 218, 440
DpnI GATC 5 cut(s) 89, 345, 545, 563, 587
DpnII GATC 5 cut(s) 87, 343, 543, 561, 585
DraIII CACNNNGTG 1 cut(s) 436
EaeI YGGCCR 2 cut(s) 385, 715
Eam1104I CTCTTC 1 cut(s) 432
EarI CTCTTC 1 cut(s) 432
EciI GGCGGA 2 cut(s) 185, 413
Ecl136II GAGCTC 2 cut(s) 57, 513
Eco24I GRGCYC 2 cut(s) 59, 515
Eco47I GGWCC 3 cut(s) 208, 390, 571
Eco53kI GAGCTC 2 cut(s) 57, 513
Eco88I CYCGRG 1 cut(s) 44
EcoICRI GAGCTC 2 cut(s) 57, 513
EcoRII CCWGG 4 cut(s) 90, 393, 498, 546
EcoT38I GRGCYC 2 cut(s) 59, 515
Esp3I CGTCTC 2 cut(s) 221, 677
FaeI CATG 1 cut(s) 232
FaiI YATR 6 cut(s) 230, 266, 405, 633, 746, 748
FatI CATG 1 cut(s) 228
FblI GTMKAC 2 cut(s) 194, 650
Fnu4HI GCNGC 1 cut(s) 718
FokI GGATG 4 cut(s) 167, 395, 623, 623
FriOI GRGCYC 2 cut(s) 59, 515
Fsp4HI GCNGC 1 cut(s) 718
GlaI GCGC 1 cut(s) 682
GluI GCNGC 1 cut(s) 718
GsaI CCCAGC 1 cut(s) 597
GsuI CTGGAG 2 cut(s) 293, 521
HaeII RGCGCY 1 cut(s) 684
HaeIII GGCC 3 cut(s) 83, 387, 717
HapII CCGG 4 cut(s) 341, 366, 388, 569
HgaI GACGC 1 cut(s) 203
HhaI GCGC 1 cut(s) 683
Hin1II CATG 1 cut(s) 232
Hin6I GCGC 1 cut(s) 681
HinP1I GCGC 1 cut(s) 681
HincII GTYRAC 1 cut(s) 423
HindII GTYRAC 1 cut(s) 423
HinfI GANTC 6 cut(s) 105, 191, 316, 419, 647, 706
HpaII CCGG 4 cut(s) 341, 366, 388, 569
HphI GGTGA 2 cut(s) 422, 693
Hpy166II GTNNAC 3 cut(s) 195, 423, 651
Hpy188I TCNGA 4 cut(s) 61, 221, 289, 517
Hpy8I GTNNAC 3 cut(s) 195, 423, 651
HpyAV CCTTC 6 cut(s) 73, 153, 301, 409, 551, 677
HpyCH4V TGCA 5 cut(s) 4, 202, 232, 460, 626
HpyF3I CTNAG 2 cut(s) 218, 440
Hsp92II CATG 1 cut(s) 232
HspAI GCGC 1 cut(s) 681
Kpn2I TCCGGA 1 cut(s) 340
Kzo9I GATC 5 cut(s) 87, 343, 543, 561, 585
MalI GATC 5 cut(s) 89, 345, 545, 563, 587
MboI GATC 5 cut(s) 87, 343, 543, 561, 585
MboII GAAGA 8 cut(s) 43, 256, 271, 325, 352, 419, 484, 553
MfeI CAATTG 2 cut(s) 146, 374
MflI RGATCY 3 cut(s) 87, 543, 561
MhlI GDGCHC 3 cut(s) 59, 441, 515
MluCI AATT 4 cut(s) 36, 146, 374, 492
MlyI GAGTC 4 cut(s) 200, 428, 656, 700
MroI TCCGGA 1 cut(s) 340
MspI CCGG 4 cut(s) 341, 366, 388, 569
MspR9I CCNGG 5 cut(s) 92, 367, 395, 500, 548
MunI CAATTG 2 cut(s) 146, 374
Mva1269I GAATGC 2 cut(s) 333, 462
MvaI CCWGG 4 cut(s) 92, 395, 500, 548
NciI CCSGG 1 cut(s) 367
NdeII GATC 5 cut(s) 87, 343, 543, 561, 585
NlaIII CATG 1 cut(s) 232
NlaIV GGNNCC 2 cut(s) 392, 563
NmeAIII GCCGAG 1 cut(s) 708
NspI RCATGY 1 cut(s) 232
PaeI GCATGC 1 cut(s) 232
PaeR7I CTCGAG 1 cut(s) 44
PctI GAATGC 2 cut(s) 333, 462
PfeI GAWTC 2 cut(s) 105, 316
PflFI GACNNNGTC 1 cut(s) 530
PfoI TCCNGGA 2 cut(s) 90, 546
PkrI GCNGC 1 cut(s) 719
PleI GAGTC 4 cut(s) 199, 427, 655, 700
PpsI GAGTC 4 cut(s) 199, 427, 655, 700
PsiI TTATAA 2 cut(s) 405, 633
Psp124BI GAGCTC 2 cut(s) 59, 515
Psp6I CCWGG 4 cut(s) 90, 393, 498, 546
PspFI CCCAGC 1 cut(s) 593
PspGI CCWGG 4 cut(s) 90, 393, 498, 546
PspN4I GGNNCC 2 cut(s) 392, 563
PspPI GGNCC 3 cut(s) 208, 390, 571
PstNI CAGNNNCTG 1 cut(s) 583
PsuI RGATCY 3 cut(s) 87, 543, 561
PsyI GACNNNGTC 1 cut(s) 530
SacI GAGCTC 2 cut(s) 59, 515
SatI GCNGC 1 cut(s) 718
Sau3AI GATC 5 cut(s) 87, 343, 543, 561, 585
Sau96I GGNCC 3 cut(s) 208, 390, 571
SchI GAGTC 4 cut(s) 200, 428, 656, 700
ScrFI CCNGG 5 cut(s) 92, 367, 395, 500, 548
SduI GDGCHC 3 cut(s) 59, 441, 515
SetI ASST 9 cut(s) 51, 59, 200, 226, 279, 435, 507, 515, 606
Sfr274I CTCGAG 1 cut(s) 44
SinI GGWCC 3 cut(s) 208, 390, 571
SlaI CTCGAG 1 cut(s) 44
SmlI CTYRAG 2 cut(s) 44, 605
SmoI CTYRAG 2 cut(s) 44, 605
SphI GCATGC 1 cut(s) 232
Sse9I AATT 4 cut(s) 36, 146, 374, 492
SsiI CCGC 3 cut(s) 170, 398, 718
SstI GAGCTC 2 cut(s) 59, 515
StyD4I CCNGG 5 cut(s) 90, 365, 393, 498, 546
TaqI TCGA 3 cut(s) 45, 51, 69
TasI AATT 4 cut(s) 36, 146, 374, 492
TauI GCSGC 1 cut(s) 720
TfiI GAWTC 2 cut(s) 105, 316
TspGWI ACGGA 2 cut(s) 171, 665
Tth111I GACNNNGTC 1 cut(s) 530
VpaK11BI GGWCC 3 cut(s) 208, 390, 571
XceI RCATGY 1 cut(s) 232
XhoI CTCGAG 1 cut(s) 44
XmiI GTMKAC 2 cut(s) 194, 650
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.