MD15G1004800.v1.1

tRNA pseudouridine synthase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr15
OG0006609
Physical Location & Seq
Forward (+)
282192 .. 284501
2310 bp
Loading structure...
UTR
Exon/CDS
Intron
MD15G1004800.v1.1.491

Sequence Viewer

Length: 324 bp
ATGGGAGAAGCATCTGTCGAGGAGATACTAGATAGCAACATTCTTCCTATGTGTTGTGGTGATAACTACAAGTTTCATGCTGCCGGAAGAGAAGATATCGATGTACGGATTTCTGGAAGGCCTTTCCAGCTTGAGATACAAAACGCACGCCTTGTCCCATCTGATGAGTCTGTAAAAAGTTTGGAAACGGAGATAAATAAATTGGTAGGTTTGAAAAATCTGAAACTGGTTGACAGTCGGTCATGGGATCTGATGCGTGAAGGGGAAGCAGAGAAACAGAAGCAGTACGTCGCGCGAGTGGATTTCTTGCCCTCTCAAGGATGA
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
No domains found.

Protein Analysis

108

Amino Acids

12.07

Weight (kDa)

4.88

Isoelectric Point (pI)

50.72

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pus10_C PF21238 3 - 100 3.5e-22 Pus10, C-terminal
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 2 cut(s) 293, 295
AclWI GGATC 1 cut(s) 255
AfaI GTAC 2 cut(s) 105, 287
AfiI CCNNNNNNNGG 1 cut(s) 317
AgsI TTSAA 1 cut(s) 214
AhdI GACNNNNNGTC 1 cut(s) 238
AluBI AGCT 1 cut(s) 130
AluI AGCT 1 cut(s) 130
AlwI GGATC 1 cut(s) 255
AoxI GGCC 1 cut(s) 119
ApeKI GCWGC 1 cut(s) 80
AspLEI GCGC 1 cut(s) 295
AsuHPI GGTGA 1 cut(s) 71
BbvI GCAGC 1 cut(s) 67
BccI CCATC 1 cut(s) 166
BfaI CTAG 1 cut(s) 29
BisI GCNGC 1 cut(s) 81
BlsI GCNGC 1 cut(s) 82
BmeRI GACNNNNNGTC 1 cut(s) 238
BmsI GCATC 2 cut(s) 20, 243
BpuEI CTTGAG 2 cut(s) 152, 300
Bsa29I ATCGAT 1 cut(s) 99
Bsc4I CCNNNNNNNGG 1 cut(s) 317
Bse1I ACTGG 1 cut(s) 231
BseCI ATCGAT 1 cut(s) 99
BseLI CCNNNNNNNGG 1 cut(s) 317
BseNI ACTGG 1 cut(s) 231
BseRI GAGGAG 1 cut(s) 35
BseXI GCAGC 1 cut(s) 67
Bsh1236I CGCG 2 cut(s) 293, 295
BshFI GGCC 1 cut(s) 121
BshVI ATCGAT 1 cut(s) 99
BsiSI CCGG 1 cut(s) 84
BslFI GGGAC 1 cut(s) 140
BslI CCNNNNNNNGG 1 cut(s) 317
BsmFI GGGAC 1 cut(s) 140
BsnI GGCC 1 cut(s) 121
Bsp143I GATC 1 cut(s) 247
BspANI GGCC 1 cut(s) 121
BspDI ATCGAT 1 cut(s) 99
BspFNI CGCG 2 cut(s) 293, 295
BspPI GGATC 1 cut(s) 255
BsrI ACTGG 1 cut(s) 231
BssMI GATC 1 cut(s) 247
Bst4CI ACNGT 1 cut(s) 236
Bst6I CTCTTC 1 cut(s) 82
BstC8I GCNNGC 1 cut(s) 148
BstFNI CGCG 2 cut(s) 293, 295
BstHHI GCGC 1 cut(s) 295
BstKTI GATC 1 cut(s) 250
BstMBI GATC 1 cut(s) 247
BstMWI GCNNNNNNNGC 1 cut(s) 127
BstUI CGCG 2 cut(s) 293, 295
BstV1I GCAGC 1 cut(s) 67
BstX2I RGATCY 1 cut(s) 247
BstYI RGATCY 1 cut(s) 247
Bsu15I ATCGAT 1 cut(s) 99
BsuRI GGCC 1 cut(s) 121
BsuTUI ATCGAT 1 cut(s) 99
Cac8I GCNNGC 1 cut(s) 148
CfoI GCGC 1 cut(s) 295
ClaI ATCGAT 1 cut(s) 99
Csp6I GTAC 2 cut(s) 104, 286
CviAII CATG 2 cut(s) 77, 243
CviJI RGCY 2 cut(s) 121, 130
CviKI_1 RGCY 2 cut(s) 121, 130
CviQI GTAC 2 cut(s) 104, 286
DpnI GATC 1 cut(s) 249
DpnII GATC 1 cut(s) 247
DriI GACNNNNNGTC 1 cut(s) 238
Eam1104I CTCTTC 1 cut(s) 82
Eam1105I GACNNNNNGTC 1 cut(s) 238
EarI CTCTTC 1 cut(s) 82
Eco147I AGGCCT 1 cut(s) 121
Eco32I GATATC 1 cut(s) 97
EcoRV GATATC 1 cut(s) 97
FaeI CATG 2 cut(s) 80, 246
FaiI YATR 3 cut(s) 50, 78, 244
FaqI GGGAC 1 cut(s) 140
FatI CATG 2 cut(s) 76, 242
Fnu4HI GCNGC 1 cut(s) 81
Fsp4HI GCNGC 1 cut(s) 81
FspBI CTAG 1 cut(s) 29
GlaI GCGC 1 cut(s) 294
GluI GCNGC 1 cut(s) 81
HaeIII GGCC 1 cut(s) 121
HapII CCGG 1 cut(s) 84
HhaI GCGC 1 cut(s) 295
Hin1II CATG 2 cut(s) 80, 246
Hin6I GCGC 1 cut(s) 293
HinP1I GCGC 1 cut(s) 293
HincII GTYRAC 1 cut(s) 232
HindII GTYRAC 1 cut(s) 232
HinfI GANTC 1 cut(s) 167
HpaII CCGG 1 cut(s) 84
HphI GGTGA 1 cut(s) 71
Hpy166II GTNNAC 1 cut(s) 232
Hpy188I TCNGA 3 cut(s) 163, 222, 252
Hpy188III TCNNGA 1 cut(s) 114
Hpy8I GTNNAC 1 cut(s) 232
Hpy99I CGWCG 1 cut(s) 293
HpyAV CCTTC 2 cut(s) 111, 254
HpyCH4III ACNGT 1 cut(s) 236
HpyCH4IV ACGT 1 cut(s) 288
HpyF10VI GCNNNNNNNGC 1 cut(s) 127
HpySE526I ACGT 1 cut(s) 288
Hsp92II CATG 2 cut(s) 80, 246
HspAI GCGC 1 cut(s) 293
Kzo9I GATC 1 cut(s) 247
LpnPI CCDG 4 cut(s) 97, 99, 140, 212
Lsp1109I GCAGC 1 cut(s) 67
LweI GCATC 2 cut(s) 20, 243
MaeI CTAG 1 cut(s) 29
MaeII ACGT 1 cut(s) 288
MalI GATC 1 cut(s) 249
MboI GATC 1 cut(s) 247
MboII GAAGA 3 cut(s) 35, 99, 104
MflI RGATCY 1 cut(s) 247
MluCI AATT 1 cut(s) 200
MlyI GAGTC 1 cut(s) 176
MnlI CCTC 2 cut(s) 13, 322
MspI CCGG 1 cut(s) 84
MvnI CGCG 2 cut(s) 293, 295
MwoI GCNNNNNNNGC 1 cut(s) 127
NdeII GATC 1 cut(s) 247
NlaIII CATG 2 cut(s) 80, 246
PceI AGGCCT 1 cut(s) 121
PkrI GCNGC 1 cut(s) 82
PleI GAGTC 1 cut(s) 175
PpsI GAGTC 1 cut(s) 175
PsuI RGATCY 1 cut(s) 247
RsaI GTAC 2 cut(s) 105, 287
RsaNI GTAC 2 cut(s) 104, 286
SatI GCNGC 1 cut(s) 81
Sau3AI GATC 1 cut(s) 247
SchI GAGTC 1 cut(s) 176
SetI ASST 3 cut(s) 132, 211, 291
SfaNI GCATC 2 cut(s) 20, 243
SmlI CTYRAG 2 cut(s) 131, 315
SmoI CTYRAG 2 cut(s) 131, 315
Sse9I AATT 1 cut(s) 200
SseBI AGGCCT 1 cut(s) 121
SspMI CTAG 1 cut(s) 29
StuI AGGCCT 1 cut(s) 121
TaaI ACNGT 1 cut(s) 236
TaiI ACGT 1 cut(s) 291
TaqI TCGA 2 cut(s) 18, 99
TaqII GACCGA 1 cut(s) 228
TasI AATT 1 cut(s) 200
TseI GCWGC 1 cut(s) 80
TspDTI ATGAA 1 cut(s) 65
TspGWI ACGGA 2 cut(s) 121, 203
XspI CTAG 1 cut(s) 29
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.