MD17G1205200.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 (+)
24889878 .. 24892310
2433 bp
Loading structure...
UTR
Exon/CDS
Intron
MD17G1205200.v1.1.491

Sequence Viewer

Length: 798 bp
ATGAGTACTCCATTGCCTACTCGCCAATTTTTTGCTCAATATCTTGAATCCGGTGACAACGGGCGTCAGATAAAACATCAAATTCCTACTGAGGAGAAAGAAATCGAAGCTCAATCTGACATCAAGGCCCAAGCCTTCAAGAAACCCAGAACTTCTGAAGCCGTATCGAACTTGAATGCGGCCTCGGGGCAGAACAAAATGTTGCCTAGCTATTACAAGACCCAACTGTGCCGTAAATTCCAAATGCGTTGTTGCTCTTCTGGGCAGAGATGTTCCTTTGCTCATGGCATCAGTGATCTCCGCAGGACTTTGCGTGATGCGCAAGGAATGGAAACTGAGAAGGGAAACTTGGCCAGGAGGACTTGGAATGGTGATCATGGAAGTTCTAATGGAGTGAGAATATGCAGGTCGTTCTTTAGATGGGGAACATGCAGTTACGGAGACAAATGCCGCTTTCGTCATGTCAATCCTGAAAATATCAGAGATAGTTCGTTCATAAGCATTTCAACTGCTGGTGGTTCTGCTCAATTTGACTGCAAGAAGTCTCTGGAACTAAGGAAGCTTTGTGGCTATACGACACTGGAAAGTGGAAGTGTCCAGGCTAACAGTTTAACTACTTATACGAGGGGCAACAATGCATCAAATCGTAGGATGGGGGTTGCAACTGCTTATAAACAAGGGCAGAGTACGCATTGCAACTTAGAGTGGAACGAACTTGAGAAAATGAGTCGCATCTATGCTGATTGGATTGAAGATATGCCTCTTCTACATGGCCCACCAAGCAAAGTGGAGTTCTAG
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

266

Amino Acids

29.94

Weight (kDa)

9.32

Isoelectric Point (pI)

46.98

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-CCCH PF00642 132 - 155 2.4e-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) 672
Acc16I TGCGCA 1 cut(s) 321
Acc36I ACCTGC 1 cut(s) 396
AciI CCGC 3 cut(s) 179, 301, 451
AcoI YGGCCR 1 cut(s) 351
AcsI RAATTY 2 cut(s) 81, 236
AcuI CTGAAG 1 cut(s) 177
AcyI GRCGYC 1 cut(s) 64
AfaI GTAC 2 cut(s) 7, 688
AgsI TTSAA 5 cut(s) 47, 139, 175, 507, 752
AjnI CCWGG 2 cut(s) 353, 597
AjuI GAANNNNNNNTTGG 2 cut(s) 332, 364
AluBI AGCT 3 cut(s) 110, 210, 562
AluI AGCT 3 cut(s) 110, 210, 562
Alw26I GTCTC 2 cut(s) 435, 549
Ama87I CYCGRG 1 cut(s) 184
AoxI GGCC 4 cut(s) 126, 180, 351, 772
ApoI RAATTY 2 cut(s) 81, 236
AspLEI GCGC 1 cut(s) 322
AspS9I GGNCC 2 cut(s) 127, 773
AsuHPI GGTGA 2 cut(s) 65, 383
AvaI CYCGRG 1 cut(s) 184
BalI TGGCCA 1 cut(s) 353
BccI CCATC 2 cut(s) 414, 646
BceAI ACGGC 2 cut(s) 146, 216
BciT130I CCWGG 2 cut(s) 355, 599
BclI TGATCA 1 cut(s) 373
BcoDI GTCTC 2 cut(s) 435, 549
BfaI CTAG 2 cut(s) 207, 796
BfuAI ACCTGC 1 cut(s) 396
BisI GCNGC 2 cut(s) 180, 451
BlsI GCNGC 2 cut(s) 181, 452
BmcAI AGTACT 1 cut(s) 7
Bme1390I CCNGG 2 cut(s) 355, 599
BmeT110I CYCGRG 1 cut(s) 184
BmgT120I GGNCC 2 cut(s) 127, 773
BmrFI CCNGG 2 cut(s) 355, 599
BmsI GCATC 4 cut(s) 297, 307, 647, 741
BpuEI CTTGAG 1 cut(s) 737
BsaHI GRCGYC 1 cut(s) 64
BsaJI CCNNGG 1 cut(s) 183
BsaWI WCCGGW 1 cut(s) 50
Bse1I ACTGG 1 cut(s) 585
Bse3DI GCAATG 2 cut(s) 11, 691
BseBI CCWGG 2 cut(s) 355, 599
BseDI CCNNGG 1 cut(s) 183
BseGI GGATG 1 cut(s) 657
BseMI GCAATG 2 cut(s) 11, 691
BseMII CTCAG 2 cut(s) 81, 327
BseNI ACTGG 1 cut(s) 585
BseRI GAGGAG 1 cut(s) 107
BshFI GGCC 4 cut(s) 128, 182, 353, 774
BsiHKCI CYCGRG 1 cut(s) 184
BsiSI CCGG 1 cut(s) 51
BsmAI GTCTC 2 cut(s) 435, 549
BsmI GAATGC 1 cut(s) 181
BsnI GGCC 4 cut(s) 128, 182, 353, 774
BsoBI CYCGRG 1 cut(s) 184
Bsp143I GATC 2 cut(s) 295, 373
BspACI CCGC 3 cut(s) 179, 301, 451
BspANI GGCC 4 cut(s) 128, 182, 353, 774
BspCNI CTCAG 2 cut(s) 82, 328
BspMI ACCTGC 1 cut(s) 396
BspQI GCTCTTC 1 cut(s) 262
BsrDI GCAATG 2 cut(s) 11, 691
BsrI ACTGG 1 cut(s) 585
BssECI CCNNGG 1 cut(s) 183
BssMI GATC 2 cut(s) 295, 373
BssNI GRCGYC 1 cut(s) 64
Bst2UI CCWGG 2 cut(s) 355, 599
Bst4CI ACNGT 2 cut(s) 228, 608
Bst6I CTCTTC 2 cut(s) 262, 768
BstACI GRCGYC 1 cut(s) 64
BstDEI CTNAG 4 cut(s) 90, 336, 554, 700
BstF5I GGATG 1 cut(s) 657
BstHHI GCGC 1 cut(s) 322
BstKTI GATC 2 cut(s) 298, 376
BstMAI GTCTC 2 cut(s) 435, 549
BstMBI GATC 2 cut(s) 295, 373
BstMWI GCNNNNNNNGC 3 cut(s) 319, 688, 780
BstNI CCWGG 2 cut(s) 355, 599
BstNSI RCATGY 1 cut(s) 432
BstSCI CCNGG 2 cut(s) 353, 597
BsuRI GGCC 4 cut(s) 128, 182, 353, 774
BtsCI GGATG 1 cut(s) 657
BtsIMutI CAGTG 2 cut(s) 298, 578
BveI ACCTGC 1 cut(s) 396
CfoI GCGC 1 cut(s) 322
Cfr13I GGNCC 2 cut(s) 127, 773
CseI GACGC 1 cut(s) 53
Csp6I GTAC 2 cut(s) 6, 687
CspCI CAANNNNNGTGG 1 cut(s) 768
CviAII CATG 5 cut(s) 284, 377, 429, 461, 770
CviQI GTAC 2 cut(s) 6, 687
DdeI CTNAG 4 cut(s) 90, 336, 554, 700
DpnI GATC 2 cut(s) 297, 375
DpnII GATC 2 cut(s) 295, 373
EaeI YGGCCR 1 cut(s) 351
Eam1104I CTCTTC 2 cut(s) 262, 768
EarI CTCTTC 2 cut(s) 262, 768
Eco57I CTGAAG 1 cut(s) 177
Eco88I CYCGRG 1 cut(s) 184
EcoRII CCWGG 2 cut(s) 353, 597
EcoT22I ATGCAT 1 cut(s) 640
FaeI CATG 5 cut(s) 287, 380, 432, 464, 773
FalI AAGNNNNNCTT 2 cut(s) 332, 364
FatI CATG 5 cut(s) 283, 376, 428, 460, 769
FbaI TGATCA 1 cut(s) 373
Fnu4HI GCNGC 2 cut(s) 180, 451
FokI GGATG 1 cut(s) 664
Fsp4HI GCNGC 2 cut(s) 180, 451
FspBI CTAG 2 cut(s) 207, 796
FspI TGCGCA 1 cut(s) 321
GlaI GCGC 1 cut(s) 321
GluI GCNGC 2 cut(s) 180, 451
HaeIII GGCC 4 cut(s) 128, 182, 353, 774
HapII CCGG 1 cut(s) 51
HgaI GACGC 1 cut(s) 53
HhaI GCGC 1 cut(s) 322
Hin1I GRCGYC 1 cut(s) 64
Hin1II CATG 5 cut(s) 287, 380, 432, 464, 773
Hin6I GCGC 1 cut(s) 320
HinP1I GCGC 1 cut(s) 320
HindIII AAGCTT 1 cut(s) 560
HinfI GANTC 2 cut(s) 47, 727
HpaII CCGG 1 cut(s) 51
HphI GGTGA 2 cut(s) 65, 383
Hpy188I TCNGA 4 cut(s) 69, 118, 157, 482
Hpy188III TCNNGA 4 cut(s) 44, 139, 470, 548
HpyAV CCTTC 2 cut(s) 145, 334
HpyCH4III ACNGT 2 cut(s) 228, 608
HpyCH4V TGCA 6 cut(s) 405, 432, 537, 638, 662, 696
HpyF10VI GCNNNNNNNGC 3 cut(s) 319, 688, 780
HpyF3I CTNAG 4 cut(s) 90, 336, 554, 700
Hsp92I GRCGYC 1 cut(s) 64
Hsp92II CATG 5 cut(s) 287, 380, 432, 464, 773
HspAI GCGC 1 cut(s) 320
Ksp22I TGATCA 1 cut(s) 373
Kzo9I GATC 2 cut(s) 295, 373
LguI GCTCTTC 1 cut(s) 262
LweI GCATC 4 cut(s) 297, 307, 647, 741
MaeI CTAG 2 cut(s) 207, 796
MaeIII GTNAC 2 cut(s) 53, 434
MalI GATC 2 cut(s) 297, 375
MboI GATC 2 cut(s) 295, 373
MboII GAAGA 3 cut(s) 249, 755, 764
MlsI TGGCCA 1 cut(s) 353
MluCI AATT 4 cut(s) 26, 81, 236, 527
MluNI TGGCCA 1 cut(s) 353
MlyI GAGTC 1 cut(s) 736
MnlI CCTC 5 cut(s) 85, 193, 351, 618, 771
Mox20I TGGCCA 1 cut(s) 353
Mph1103I ATGCAT 1 cut(s) 640
MscI TGGCCA 1 cut(s) 353
MseI TTAA 1 cut(s) 611
Msp20I TGGCCA 1 cut(s) 353
MspI CCGG 1 cut(s) 51
MspR9I CCNGG 2 cut(s) 355, 599
Mva1269I GAATGC 1 cut(s) 181
MvaI CCWGG 2 cut(s) 355, 599
MwoI GCNNNNNNNGC 3 cut(s) 319, 688, 780
NdeII GATC 2 cut(s) 295, 373
NlaIII CATG 5 cut(s) 287, 380, 432, 464, 773
NmuCI GTSAC 1 cut(s) 53
NsbI TGCGCA 1 cut(s) 321
NsiI ATGCAT 1 cut(s) 640
NspI RCATGY 1 cut(s) 432
PciSI GCTCTTC 1 cut(s) 262
PctI GAATGC 1 cut(s) 181
PfeI GAWTC 1 cut(s) 47
PkrI GCNGC 2 cut(s) 181, 452
PleI GAGTC 1 cut(s) 735
PpsI GAGTC 1 cut(s) 735
PsiI TTATAA 1 cut(s) 672
Psp6I CCWGG 2 cut(s) 353, 597
PspGI CCWGG 2 cut(s) 353, 597
PspPI GGNCC 2 cut(s) 127, 773
RsaI GTAC 2 cut(s) 7, 688
RsaNI GTAC 2 cut(s) 6, 687
SapI GCTCTTC 1 cut(s) 262
SaqAI TTAA 1 cut(s) 611
SatI GCNGC 2 cut(s) 180, 451
Sau3AI GATC 2 cut(s) 295, 373
Sau96I GGNCC 2 cut(s) 127, 773
ScaI AGTACT 1 cut(s) 7
SchI GAGTC 1 cut(s) 736
ScrFI CCNGG 2 cut(s) 355, 599
SetI ASST 4 cut(s) 112, 212, 410, 564
SfaNI GCATC 4 cut(s) 297, 307, 647, 741
SmlI CTYRAG 1 cut(s) 716
SmoI CTYRAG 1 cut(s) 716
Sse9I AATT 4 cut(s) 26, 81, 236, 527
SsiI CCGC 3 cut(s) 179, 301, 451
SspMI CTAG 2 cut(s) 207, 796
StyD4I CCNGG 2 cut(s) 353, 597
TaaI ACNGT 2 cut(s) 228, 608
TaqI TCGA 2 cut(s) 105, 167
TasI AATT 4 cut(s) 26, 81, 236, 527
TatI WGTACW 1 cut(s) 5
TauI GCSGC 2 cut(s) 182, 453
TfiI GAWTC 1 cut(s) 47
Tru1I TTAA 1 cut(s) 611
Tru9I TTAA 1 cut(s) 611
TscAI CASTG 2 cut(s) 298, 585
TseFI GTSAC 1 cut(s) 53
Tsp45I GTSAC 1 cut(s) 53
TspDTI ATGAA 1 cut(s) 484
TspGWI ACGGA 1 cut(s) 453
TspRI CASTG 2 cut(s) 298, 585
XapI RAATTY 2 cut(s) 81, 236
XceI RCATGY 1 cut(s) 432
XspI CTAG 2 cut(s) 207, 796
ZrmI AGTACT 1 cut(s) 7
Zsp2I ATGCAT 1 cut(s) 640
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.