MD17G1280900.v1.1

ubiquitin-40S ribosomal protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr17
OG0004355
Physical Location & Seq
Reverse (-)
34072289 .. 34072759
471 bp
Loading structure...
UTR
Exon/CDS
Intron
MD17G1280900.v1.1.491

Sequence Viewer

Length: 471 bp
ATGCAGATCTTCGTGAAAACCCTGACGGGGAAGACGATAACCCTAGAGGTTGAGTCTTCCGACACCATCGACAATGTGAAGGCCAAGATCCAGGACAAGGAGGGCATCCCGCCGGACCAGCAGCGCCTCATCTTCGCCGGCAAGCAGCTGGAGGACGGCCGTACCCTCGCCGACTACAACATCCAGAAGGAGTCGACTCTGCACCTGGTGCTCCGCCTCCGCGGTGGCGCTAAGAAGCGTAAGAAGAAGACCTACACCAAGCCCAAGAAGATCAAGCACAAGCACAAGAAGGTGAAGCTCGCCGTCCTCCAGTTCTACAAGGTCGACGATTCCGGGAAGGTCCAGAGGCTGAGGAAGGAGTGCCCCAACGCTGAGTGCGGCGCTGGGACTTTCATGGCCAACCATTTTGACAGGCACTACTGTGGTAAGTGTGGTCTCACCTATGTTTACCAGAAGGCCGGCGGCGACTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03010 map03010
Pfam Domains
Protein Families
Ribosomal_S27 ubiquitin

Protein Analysis

157

Amino Acids

17.71

Weight (kDa)

9.77

Isoelectric Point (pI)

34.91

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Rad60-SLD PF11976 1 - 71 1.5e-17 Ubiquitin-2 like Rad60 SUMO-like
ubiquitin PF00240 3 - 74 1.9e-32 Ubiquitin family
Ribosomal_S27 PF01599 102 - 147 3.5e-26 Ribosomal protein S27a
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 2 cut(s) 194, 324
AccII CGCG 1 cut(s) 222
AciI CCGC 6 cut(s) 110, 214, 220, 222, 378, 462
AclWI GGATC 1 cut(s) 82
AcoI YGGCCR 2 cut(s) 157, 396
AdeI CACNNNGTG 1 cut(s) 208
AfaI GTAC 1 cut(s) 163
AfiI CCNNNNNNNGG 2 cut(s) 27, 97
AjnI CCWGG 2 cut(s) 90, 204
AleI CACNNNNGTG 1 cut(s) 420
AluBI AGCT 2 cut(s) 148, 298
AluI AGCT 2 cut(s) 148, 298
Alw21I GWGCWC 1 cut(s) 213
Alw26I GTCTC 1 cut(s) 440
AlwI GGATC 1 cut(s) 82
AlwNI CAGNNNCTG 1 cut(s) 349
AoxI GGCC 4 cut(s) 81, 157, 396, 456
ApeKI GCWGC 2 cut(s) 121, 145
AspLEI GCGC 3 cut(s) 126, 230, 383
AspS9I GGNCC 2 cut(s) 115, 340
AsuC2I CCSGG 1 cut(s) 334
AsuHPI GGTGA 2 cut(s) 304, 430
AvaII GGWCC 2 cut(s) 115, 340
BaeGI GKGCMC 1 cut(s) 365
BaeI ACNNNNGTAYC 2 cut(s) 145, 178
BalI TGGCCA 1 cut(s) 398
BarI GAAGNNNNNNTAC 2 cut(s) 236, 268
BbsI GAAGAC 3 cut(s) 38, 48, 254
Bbv12I GWGCWC 1 cut(s) 213
BbvCI CCTCAGC 1 cut(s) 350
BbvI GCAGC 2 cut(s) 133, 157
BccI CCATC 1 cut(s) 74
BceAI ACGGC 3 cut(s) 144, 172, 287
BciT130I CCWGG 2 cut(s) 92, 206
BcnI CCSGG 1 cut(s) 334
BcoDI GTCTC 1 cut(s) 440
BfaI CTAG 1 cut(s) 44
BfoI RGCGCY 3 cut(s) 127, 231, 384
BglII AGATCT 1 cut(s) 6
BisI GCNGC 4 cut(s) 122, 146, 379, 463
BlsI GCNGC 4 cut(s) 123, 147, 380, 464
Bme1390I CCNGG 3 cut(s) 92, 206, 334
Bme18I GGWCC 2 cut(s) 115, 340
BmgT120I GGNCC 2 cut(s) 115, 340
BmrFI CCNGG 3 cut(s) 92, 206, 334
BmsI GCATC 1 cut(s) 114
BpiI GAAGAC 3 cut(s) 38, 48, 254
BpmI CTGGAG 2 cut(s) 170, 293
Bpu10I CCTNAGC 1 cut(s) 350
BpuMI CCSGG 1 cut(s) 334
BsaI GGTCTC 1 cut(s) 440
BsaJI CCNNGG 1 cut(s) 220
Bsc4I CCNNNNNNNGG 2 cut(s) 27, 97
Bse118I RCCGGY 2 cut(s) 137, 458
Bse1I ACTGG 1 cut(s) 310
BseBI CCWGG 2 cut(s) 92, 206
BseDI CCNNGG 1 cut(s) 220
BseGI GGATG 2 cut(s) 105, 180
BseLI CCNNNNNNNGG 2 cut(s) 27, 97
BseMII CTCAG 2 cut(s) 341, 363
BseNI ACTGG 1 cut(s) 310
BseSI GKGCMC 1 cut(s) 365
BseX3I CGGCCG 1 cut(s) 157
BseXI GCAGC 2 cut(s) 133, 157
BseYI CCCAGC 1 cut(s) 383
BsgI GTGCAG 1 cut(s) 185
Bsh1236I CGCG 1 cut(s) 222
Bsh1285I CGRYCG 1 cut(s) 160
BshFI GGCC 4 cut(s) 83, 159, 398, 458
BsiEI CGRYCG 1 cut(s) 160
BsiHKAI GWGCWC 1 cut(s) 213
BsiSI CCGG 4 cut(s) 113, 138, 333, 459
BslFI GGGAC 1 cut(s) 400
BslI CCNNNNNNNGG 2 cut(s) 27, 97
BsmAI GTCTC 1 cut(s) 440
BsmFI GGGAC 1 cut(s) 400
BsnI GGCC 4 cut(s) 83, 159, 398, 458
Bso31I GGTCTC 1 cut(s) 440
Bsp1286I GDGCHC 2 cut(s) 213, 365
Bsp143I GATC 3 cut(s) 6, 87, 270
BspACI CCGC 6 cut(s) 110, 214, 220, 222, 378, 462
BspANI GGCC 4 cut(s) 83, 159, 398, 458
BspCNI CTCAG 2 cut(s) 342, 364
BspFNI CGCG 1 cut(s) 222
BspPI GGATC 1 cut(s) 82
BspTNI GGTCTC 1 cut(s) 440
BsrFI RCCGGY 2 cut(s) 137, 458
BsrI ACTGG 1 cut(s) 310
BssAI RCCGGY 2 cut(s) 137, 458
BssECI CCNNGG 1 cut(s) 220
BssMI GATC 3 cut(s) 6, 87, 270
Bst2UI CCWGG 2 cut(s) 92, 206
Bst4CI ACNGT 1 cut(s) 422
BstAPI GCANNNNNTGC 1 cut(s) 208
BstC8I GCNNGC 4 cut(s) 139, 143, 300, 460
BstDEI CTNAG 3 cut(s) 231, 350, 372
BstDSI CCRYGG 1 cut(s) 220
BstF5I GGATG 2 cut(s) 105, 180
BstFNI CGCG 1 cut(s) 222
BstH2I RGCGCY 3 cut(s) 127, 231, 384
BstHHI GCGC 3 cut(s) 126, 230, 383
BstKTI GATC 3 cut(s) 9, 90, 273
BstMAI GTCTC 1 cut(s) 440
BstMBI GATC 3 cut(s) 6, 87, 270
BstMCI CGRYCG 1 cut(s) 160
BstMWI GCNNNNNNNGC 2 cut(s) 118, 208
BstNI CCWGG 2 cut(s) 92, 206
BstSCI CCNGG 3 cut(s) 90, 204, 332
BstSLI GKGCMC 1 cut(s) 365
BstUI CGCG 1 cut(s) 222
BstV1I GCAGC 2 cut(s) 133, 157
BstV2I GAAGAC 3 cut(s) 38, 48, 254
BstX2I RGATCY 2 cut(s) 6, 87
BstYI RGATCY 2 cut(s) 6, 87
BstZI CGGCCG 1 cut(s) 157
BsuRI GGCC 4 cut(s) 83, 159, 398, 458
BtgI CCRYGG 1 cut(s) 220
BtsCI GGATG 2 cut(s) 105, 180
Cac8I GCNNGC 4 cut(s) 139, 143, 300, 460
CaiI CAGNNNCTG 1 cut(s) 349
CfoI GCGC 3 cut(s) 126, 230, 383
Cfr10I RCCGGY 2 cut(s) 137, 458
Cfr13I GGNCC 2 cut(s) 115, 340
Cfr42I CCGCGG 1 cut(s) 223
CsiI ACCWGGT 1 cut(s) 204
Csp6I GTAC 1 cut(s) 162
CviAII CATG 1 cut(s) 394
CviJI RGCY 8 cut(s) 83, 148, 159, 262, 298, 349, 398, 458
CviKI_1 RGCY 8 cut(s) 83, 148, 159, 262, 298, 349, 398, 458
CviQI GTAC 1 cut(s) 162
DdeI CTNAG 3 cut(s) 231, 350, 372
DpnI GATC 3 cut(s) 8, 89, 272
DpnII GATC 3 cut(s) 6, 87, 270
DraIII CACNNNGTG 1 cut(s) 208
EaeI YGGCCR 2 cut(s) 157, 396
EagI CGGCCG 1 cut(s) 157
EciI GGCGGA 1 cut(s) 203
EclXI CGGCCG 1 cut(s) 157
Eco31I GGTCTC 1 cut(s) 440
Eco47I GGWCC 2 cut(s) 115, 340
Eco52I CGGCCG 1 cut(s) 157
EcoRII CCWGG 2 cut(s) 90, 204
FaeI CATG 1 cut(s) 397
FaiI YATR 2 cut(s) 395, 444
FaqI GGGAC 1 cut(s) 400
FatI CATG 1 cut(s) 393
FauI CCCGC 1 cut(s) 117
FblI GTMKAC 2 cut(s) 194, 324
Fnu4HI GCNGC 4 cut(s) 122, 146, 379, 463
FokI GGATG 2 cut(s) 92, 167
Fsp4HI GCNGC 4 cut(s) 122, 146, 379, 463
FspBI CTAG 1 cut(s) 44
GlaI GCGC 3 cut(s) 125, 229, 382
GluI GCNGC 4 cut(s) 122, 146, 379, 463
GsaI CCCAGC 1 cut(s) 387
GsuI CTGGAG 2 cut(s) 170, 293
HaeII RGCGCY 3 cut(s) 127, 231, 384
HaeIII GGCC 4 cut(s) 83, 159, 398, 458
HapII CCGG 4 cut(s) 113, 138, 333, 459
HhaI GCGC 3 cut(s) 126, 230, 383
Hin1II CATG 1 cut(s) 397
Hin6I GCGC 3 cut(s) 124, 228, 381
HinP1I GCGC 3 cut(s) 124, 228, 381
HincII GTYRAC 2 cut(s) 195, 325
HindII GTYRAC 2 cut(s) 195, 325
HinfI GANTC 4 cut(s) 53, 191, 196, 329
HpaII CCGG 4 cut(s) 113, 138, 333, 459
HphI GGTGA 2 cut(s) 304, 430
Hpy166II GTNNAC 3 cut(s) 195, 325, 448
Hpy188I TCNGA 1 cut(s) 61
Hpy188III TCNNGA 3 cut(s) 13, 184, 343
Hpy8I GTNNAC 3 cut(s) 195, 325, 448
Hpy99I CGWCG 1 cut(s) 329
HpyAV CCTTC 6 cut(s) 73, 181, 283, 331, 349, 448
HpyCH4III ACNGT 1 cut(s) 422
HpyCH4V TGCA 2 cut(s) 4, 202
HpyF10VI GCNNNNNNNGC 2 cut(s) 118, 208
HpyF3I CTNAG 3 cut(s) 231, 350, 372
Hsp92II CATG 1 cut(s) 397
HspAI GCGC 3 cut(s) 124, 228, 381
KroI GCCGGC 2 cut(s) 137, 458
KroNI GCCGGC 2 cut(s) 139, 460
KspI CCGCGG 1 cut(s) 223
Kzo9I GATC 3 cut(s) 6, 87, 270
LmnI GCTCC 1 cut(s) 216
Lsp1109I GCAGC 2 cut(s) 133, 157
LweI GCATC 1 cut(s) 114
MabI ACCWGGT 1 cut(s) 204
MaeI CTAG 1 cut(s) 44
MalI GATC 3 cut(s) 8, 89, 272
MboI GATC 3 cut(s) 6, 87, 270
MboII GAAGA 6 cut(s) 43, 48, 124, 256, 259, 280
MflI RGATCY 2 cut(s) 6, 87
MhlI GDGCHC 2 cut(s) 213, 365
MlsI TGGCCA 1 cut(s) 398
MluNI TGGCCA 1 cut(s) 398
MlyI GAGTC 3 cut(s) 62, 190, 200
MmeI TCCRAC 1 cut(s) 84
MnlI CCTC 9 cut(s) 40, 94, 137, 145, 176, 227, 317, 339, 345
Mox20I TGGCCA 1 cut(s) 398
MroNI GCCGGC 2 cut(s) 137, 458
MscI TGGCCA 1 cut(s) 398
MslI CAYNNNNRTG 1 cut(s) 420
Msp20I TGGCCA 1 cut(s) 398
MspA1I CMGCKG 2 cut(s) 148, 222
MspI CCGG 4 cut(s) 113, 138, 333, 459
MspR9I CCNGG 3 cut(s) 92, 206, 334
MvaI CCWGG 2 cut(s) 92, 206
MvnI CGCG 1 cut(s) 222
MwoI GCNNNNNNNGC 2 cut(s) 118, 208
NaeI GCCGGC 2 cut(s) 139, 460
NciI CCSGG 1 cut(s) 334
NdeII GATC 3 cut(s) 6, 87, 270
NgoMIV GCCGGC 2 cut(s) 137, 458
NlaIII CATG 1 cut(s) 397
OliI CACNNNNGTG 1 cut(s) 420
PcsI WCGNNNNNNNCGW 1 cut(s) 32
PdiI GCCGGC 2 cut(s) 139, 460
PfeI GAWTC 1 cut(s) 329
PfoI TCCNGGA 2 cut(s) 90, 332
PkrI GCNGC 4 cut(s) 123, 147, 380, 464
PleI GAGTC 3 cut(s) 61, 190, 199
PpsI GAGTC 3 cut(s) 61, 190, 199
Psp6I CCWGG 2 cut(s) 90, 204
PspFI CCCAGC 1 cut(s) 383
PspGI CCWGG 2 cut(s) 90, 204
PspPI GGNCC 2 cut(s) 115, 340
PstNI CAGNNNCTG 1 cut(s) 349
PsuI RGATCY 2 cut(s) 6, 87
PvuII CAGCTG 1 cut(s) 148
RsaI GTAC 1 cut(s) 163
RsaNI GTAC 1 cut(s) 162
RseI CAYNNNNRTG 1 cut(s) 420
SacII CCGCGG 1 cut(s) 223
SalI GTCGAC 2 cut(s) 193, 323
SatI GCNGC 4 cut(s) 122, 146, 379, 463
Sau3AI GATC 3 cut(s) 6, 87, 270
Sau96I GGNCC 2 cut(s) 115, 340
SchI GAGTC 3 cut(s) 62, 190, 200
ScrFI CCNGG 3 cut(s) 92, 206, 334
SduI GDGCHC 2 cut(s) 213, 365
SetI ASST 9 cut(s) 51, 150, 207, 254, 294, 300, 324, 342, 443
SexAI ACCWGGT 1 cut(s) 204
SfaNI GCATC 1 cut(s) 114
Sfr303I CCGCGG 1 cut(s) 223
SgrBI CCGCGG 1 cut(s) 223
SinI GGWCC 2 cut(s) 115, 340
SmiMI CAYNNNNRTG 1 cut(s) 420
SsiI CCGC 6 cut(s) 110, 214, 220, 222, 378, 462
SspMI CTAG 1 cut(s) 44
StyD4I CCNGG 3 cut(s) 90, 204, 332
TaaI ACNGT 1 cut(s) 422
TaqI TCGA 3 cut(s) 69, 194, 324
TauI GCSGC 2 cut(s) 381, 465
TfiI GAWTC 1 cut(s) 329
TseI GCWGC 2 cut(s) 121, 145
TspDTI ATGAA 1 cut(s) 382
VpaK11BI GGWCC 2 cut(s) 115, 340
XmiI GTMKAC 2 cut(s) 194, 324
XspI CTAG 1 cut(s) 44
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.