MD17G1204700.v1.1

3'-UTR-mediated mRNA destabilization

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr17
OG0006416
Physical Location & Seq
Forward (+)
24779532 .. 24781023
1492 bp
Loading structure...
UTR
Exon/CDS
Intron
MD17G1204700.v1.1.491

Sequence Viewer

Length: 615 bp
ATGTTGCCTAGCTATTACAAGACCCAACTGTGCCGTAAATTCCAAATGGGTTGTTGCTCTTCTGGGCAGAGATGTTCCTTTGCTCATGGCACCAGTGATCTCCGCAGGACTTTGCGTGATGCGCAAGGAATGGAAACTGAGAAGGGAAACTTGGCCAGGAGGACTTGGAATGGTGATCATGGAAGTTCTAATGGAGTGAGAATATGCAGGTCGTTCTTTAGATGGGGAACATGCAGTTACGGAGACAAATGCCGCTTTCGTCATGTCAATCCTGAAAATATCAGAGATAGTTCGTTCATAAGCATTTCAACTGCTGGTGGTTCTGCTCAATTTGACTGCAAGAAGTCTCTGGAACAAAGGAAGCTTTGTGGCTATACTACACCAGAATGTGGAAGTGTGCAGGCTAACAGTTTAACGGCTTATACGAGGGGCAACAATGCATCAAATCATAGGATGGGGATTGCGATTGCTTATAAACAAGGTCAAAGTACGCAGTGCAACTTAGAGTGGAACGAACTTGAGAAATTGAGTCGCATCTATGCTGATTGGATTGAAGATATGCCTCTTCTACATGGCTCATCAAGCAAAGTGGAGTGCTACTCGAGTTTAGTATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko04218 map04218
Pfam Domains
Protein Families
KH_1 W2 zf-CCCH zf-CCCH_2

Protein Analysis

205

Amino Acids

22.94

Weight (kDa)

9.03

Isoelectric Point (pI)

41.93

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-CCCH PF00642 66 - 89 1.6e-06 Zinc finger C-x8-C-x5-C-x3-H type (and similar)
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)
AanI TTATAA 1 cut(s) 474
Acc16I TGCGCA 1 cut(s) 123
Acc36I ACCTGC 1 cut(s) 198
AccB1I GGYRCC 1 cut(s) 89
AccB7I CCANNNNNTGG 1 cut(s) 389
AciI CCGC 2 cut(s) 103, 253
AcoI YGGCCR 1 cut(s) 153
AcsI RAATTY 1 cut(s) 38
AfaI GTAC 1 cut(s) 490
AfiI CCNNNNNNNGG 1 cut(s) 389
AgsI TTSAA 2 cut(s) 309, 554
AjnI CCWGG 1 cut(s) 155
AjuI GAANNNNNNNTTGG 2 cut(s) 134, 166
AluBI AGCT 2 cut(s) 12, 364
AluI AGCT 2 cut(s) 12, 364
Alw26I GTCTC 2 cut(s) 237, 351
Ama87I CYCGRG 1 cut(s) 601
AoxI GGCC 1 cut(s) 153
ApoI RAATTY 1 cut(s) 38
AspLEI GCGC 1 cut(s) 124
AsuHPI GGTGA 1 cut(s) 185
AvaI CYCGRG 1 cut(s) 601
BalI TGGCCA 1 cut(s) 155
BanI GGYRCC 1 cut(s) 89
BccI CCATC 2 cut(s) 216, 448
BceAI ACGGC 2 cut(s) 18, 432
BciT130I CCWGG 1 cut(s) 157
BclI TGATCA 1 cut(s) 175
BcoDI GTCTC 2 cut(s) 237, 351
BfaI CTAG 1 cut(s) 9
BfuAI ACCTGC 1 cut(s) 198
BisI GCNGC 1 cut(s) 253
BlsI GCNGC 1 cut(s) 254
Bme1390I CCNGG 1 cut(s) 157
BmeT110I CYCGRG 1 cut(s) 601
BmiI GGNNCC 1 cut(s) 91
BmrFI CCNGG 1 cut(s) 157
BmsI GCATC 3 cut(s) 109, 449, 543
BplI GAGNNNNNCTC 1 cut(s) 584
BpuEI CTTGAG 1 cut(s) 539
Bsc4I CCNNNNNNNGG 1 cut(s) 389
Bse1I ACTGG 1 cut(s) 93
BseBI CCWGG 1 cut(s) 157
BseGI GGATG 1 cut(s) 459
BseLI CCNNNNNNNGG 1 cut(s) 389
BseMII CTCAG 1 cut(s) 129
BseNI ACTGG 1 cut(s) 93
BsgI GTGCAG 1 cut(s) 419
BshFI GGCC 1 cut(s) 155
BshNI GGYRCC 1 cut(s) 89
BsiHKCI CYCGRG 1 cut(s) 601
BslI CCNNNNNNNGG 1 cut(s) 389
BsmAI GTCTC 2 cut(s) 237, 351
BsnI GGCC 1 cut(s) 155
BsoBI CYCGRG 1 cut(s) 601
Bsp143I GATC 2 cut(s) 97, 175
BspACI CCGC 2 cut(s) 103, 253
BspANI GGCC 1 cut(s) 155
BspCNI CTCAG 1 cut(s) 130
BspLI GGNNCC 1 cut(s) 91
BspMI ACCTGC 1 cut(s) 198
BspQI GCTCTTC 1 cut(s) 64
BspT107I GGYRCC 1 cut(s) 89
BsrI ACTGG 1 cut(s) 93
BssMI GATC 2 cut(s) 97, 175
Bst2UI CCWGG 1 cut(s) 157
Bst4CI ACNGT 2 cut(s) 30, 410
Bst6I CTCTTC 2 cut(s) 64, 570
BstC8I GCNNGC 1 cut(s) 402
BstDEI CTNAG 2 cut(s) 138, 502
BstF5I GGATG 1 cut(s) 459
BstHHI GCGC 1 cut(s) 124
BstKTI GATC 2 cut(s) 100, 178
BstMAI GTCTC 2 cut(s) 237, 351
BstMBI GATC 2 cut(s) 97, 175
BstMWI GCNNNNNNNGC 2 cut(s) 121, 582
BstNI CCWGG 1 cut(s) 157
BstNSI RCATGY 1 cut(s) 234
BstSCI CCNGG 1 cut(s) 155
BsuRI GGCC 1 cut(s) 155
BtsCI GGATG 1 cut(s) 459
BtsI GCAGTG 1 cut(s) 500
BtsIMutI CAGTG 2 cut(s) 100, 500
BveI ACCTGC 1 cut(s) 198
Cac8I GCNNGC 1 cut(s) 402
CfoI GCGC 1 cut(s) 124
Csp6I GTAC 1 cut(s) 489
CspCI CAANNNNNGTGG 2 cut(s) 570, 605
CviAII CATG 5 cut(s) 86, 179, 231, 263, 572
CviJI RGCY 7 cut(s) 12, 155, 364, 372, 404, 419, 576
CviKI_1 RGCY 7 cut(s) 12, 155, 364, 372, 404, 419, 576
CviQI GTAC 1 cut(s) 489
DdeI CTNAG 2 cut(s) 138, 502
DpnI GATC 2 cut(s) 99, 177
DpnII GATC 2 cut(s) 97, 175
EaeI YGGCCR 1 cut(s) 153
Eam1104I CTCTTC 2 cut(s) 64, 570
EarI CTCTTC 2 cut(s) 64, 570
Eco88I CYCGRG 1 cut(s) 601
EcoRII CCWGG 1 cut(s) 155
EcoT22I ATGCAT 1 cut(s) 442
FaeI CATG 5 cut(s) 89, 182, 234, 266, 575
FalI AAGNNNNNCTT 2 cut(s) 134, 166
FatI CATG 5 cut(s) 85, 178, 230, 262, 571
FbaI TGATCA 1 cut(s) 175
Fnu4HI GCNGC 1 cut(s) 253
FokI GGATG 1 cut(s) 466
Fsp4HI GCNGC 1 cut(s) 253
FspBI CTAG 1 cut(s) 9
FspI TGCGCA 1 cut(s) 123
GlaI GCGC 1 cut(s) 123
GluI GCNGC 1 cut(s) 253
HaeIII GGCC 1 cut(s) 155
HhaI GCGC 1 cut(s) 124
Hin1II CATG 5 cut(s) 89, 182, 234, 266, 575
Hin6I GCGC 1 cut(s) 122
HinP1I GCGC 1 cut(s) 122
HindIII AAGCTT 1 cut(s) 362
HinfI GANTC 1 cut(s) 529
HphI GGTGA 1 cut(s) 185
Hpy188I TCNGA 1 cut(s) 284
Hpy188III TCNNGA 2 cut(s) 272, 350
HpyAV CCTTC 1 cut(s) 136
HpyCH4III ACNGT 2 cut(s) 30, 410
HpyCH4V TGCA 6 cut(s) 207, 234, 339, 400, 440, 498
HpyF10VI GCNNNNNNNGC 2 cut(s) 121, 582
HpyF3I CTNAG 2 cut(s) 138, 502
Hsp92II CATG 5 cut(s) 89, 182, 234, 266, 575
HspAI GCGC 1 cut(s) 122
Ksp22I TGATCA 1 cut(s) 175
Kzo9I GATC 2 cut(s) 97, 175
LguI GCTCTTC 1 cut(s) 64
LweI GCATC 3 cut(s) 109, 449, 543
MaeI CTAG 1 cut(s) 9
MaeIII GTNAC 1 cut(s) 236
MalI GATC 2 cut(s) 99, 177
MboI GATC 2 cut(s) 97, 175
MboII GAAGA 3 cut(s) 51, 557, 566
MlsI TGGCCA 1 cut(s) 155
MluCI AATT 3 cut(s) 38, 329, 524
MluNI TGGCCA 1 cut(s) 155
MlyI GAGTC 1 cut(s) 538
MnlI CCTC 3 cut(s) 153, 420, 573
Mox20I TGGCCA 1 cut(s) 155
Mph1103I ATGCAT 1 cut(s) 442
MscI TGGCCA 1 cut(s) 155
MseI TTAA 1 cut(s) 413
MslI CAYNNNNRTG 1 cut(s) 385
Msp20I TGGCCA 1 cut(s) 155
MspR9I CCNGG 1 cut(s) 157
MvaI CCWGG 1 cut(s) 157
MwoI GCNNNNNNNGC 2 cut(s) 121, 582
NdeII GATC 2 cut(s) 97, 175
NlaIII CATG 5 cut(s) 89, 182, 234, 266, 575
NlaIV GGNNCC 1 cut(s) 91
NsbI TGCGCA 1 cut(s) 123
NsiI ATGCAT 1 cut(s) 442
NspI RCATGY 1 cut(s) 234
PaeR7I CTCGAG 1 cut(s) 601
PciSI GCTCTTC 1 cut(s) 64
PcsI WCGNNNNNNNCGW 1 cut(s) 422
PflMI CCANNNNNTGG 1 cut(s) 389
PkrI GCNGC 1 cut(s) 254
PleI GAGTC 1 cut(s) 537
PpsI GAGTC 1 cut(s) 537
PsiI TTATAA 1 cut(s) 474
Psp6I CCWGG 1 cut(s) 155
PspGI CCWGG 1 cut(s) 155
PspN4I GGNNCC 1 cut(s) 91
PspXI VCTCGAGB 1 cut(s) 601
RsaI GTAC 1 cut(s) 490
RsaNI GTAC 1 cut(s) 489
RseI CAYNNNNRTG 1 cut(s) 385
SapI GCTCTTC 1 cut(s) 64
SaqAI TTAA 1 cut(s) 413
SatI GCNGC 1 cut(s) 253
Sau3AI GATC 2 cut(s) 97, 175
SchI GAGTC 1 cut(s) 538
ScrFI CCNGG 1 cut(s) 157
SetI ASST 4 cut(s) 14, 212, 366, 484
SfaNI GCATC 3 cut(s) 109, 449, 543
Sfr274I CTCGAG 1 cut(s) 601
SlaI CTCGAG 1 cut(s) 601
SmiMI CAYNNNNRTG 1 cut(s) 385
SmlI CTYRAG 2 cut(s) 518, 601
SmoI CTYRAG 2 cut(s) 518, 601
Sse9I AATT 3 cut(s) 38, 329, 524
SsiI CCGC 2 cut(s) 103, 253
SspMI CTAG 1 cut(s) 9
StyD4I CCNGG 1 cut(s) 155
TaaI ACNGT 2 cut(s) 30, 410
TaqI TCGA 1 cut(s) 602
TasI AATT 3 cut(s) 38, 329, 524
TauI GCSGC 1 cut(s) 255
Tru1I TTAA 1 cut(s) 413
Tru9I TTAA 1 cut(s) 413
TscAI CASTG 2 cut(s) 100, 500
TspDTI ATGAA 1 cut(s) 286
TspGWI ACGGA 1 cut(s) 255
TspRI CASTG 2 cut(s) 100, 500
Van91I CCANNNNNTGG 1 cut(s) 389
XapI RAATTY 1 cut(s) 38
XceI RCATGY 1 cut(s) 234
XhoI CTCGAG 1 cut(s) 601
XspI CTAG 1 cut(s) 9
Zsp2I ATGCAT 1 cut(s) 442
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.