MmuINT0010257 @ mm9
Intron Retention
Gene
ENSMUSG00000030935 | Acsm3
Description
acyl-CoA synthetase medium-chain family member 3 [Source:MGI Symbol;Acc:MGI:99538]
Coordinates
chr7:126920567-126921973:+
Coord C1 exon
chr7:126920567-126920690
Coord A exon
chr7:126920691-126921892
Coord C2 exon
chr7:126921893-126921973
Length
1202 bp
Sequences
Splice sites
5' ss Seq
ACGGTACCT
5' ss Score
6.79
3' ss Seq
ACTTTTTTCTCCTTGCCTAGGTG
3' ss Score
10.61
Exon sequences
Seq C1 exon
CTATAAGTTCAACAGTTTGAAGCACTGTGTCAGTGCTGGAGAACCTATTAACCCTGAAGTGATGGAACAATGGAGAAAGAAGACGGGCCTAGACATCTATGAAGGATATGGACAGACAGAAACG
Seq A exon
GTACCTGCCCCACTGAAGACAGGATTAGATGGGATTAGTTAGATAAATAAAAGCCAAAGTGTCTAATGTGTCATGATCACTGGAGGGATAAGGAAAGGGGTGGTTAGGAAACTAGTTTTAAAAAATAAAGAAAAGTTTGAGAAAACCTAAACTGAAAAAAAAAAACCAACAACAAACCTTTGTAACAGTTTTGAGAAAAATGATTAACTGATCAAGCTGAGAATGTTCCAATGGTTTTAATGAGAAGAAAGTATTGGATCTATGTGACAGGGGACTTTCTAAAGAGTCACAAAAGTTAAAGCTGTGAGTTTCTTGTCCCCTGAATTATTAAGTCTGCTGGGAGTCTCCTTAGAAATCAGCTGCTAGGGCTGGAGAGGTGGCTCAGCGCTTAAGAGCACTGAGTTCAAATCCCAGCAACCACATGGTGGCCCACAACCATCTATAATGAGATCCGATACTCTCTTCTGGAGTGTCTGAAGACAGCTACAGTGAACTTACATATAATAATAAATAAATCTAAAAAAACAAAAAGGAAAGCAGCTGCTAAAGCATTCCTGTAAAGCCTGCACACAAAAGGTAGAGGAAGGAAGATCAAGGTTGTTCTCAGCTACATTGTGAGTTCAAAACCAGCCTGGGCTCTGTGAATGAGCAAATACATAAATAATAAGGTAAAATAAAATGGGCTCTTTAAAGAACTCATGCAGATAAAAAACTGTAGGGGGGTTGTGGCCTAGGTAGTGCACTTTCCCAGCACATGTGAGGCCTTAACTCAATCCTCAGCACCACCAAGGAGCTCCAGAAATCAACAAAGTAAGAACAAAGTGGTTATTTTGTAGCAGAAAGGGAGACAAAATGATCAGAGAAAGGGAAAAGTGGAAACATTTTTCATTGGCCATGCCTTATTTTTAATGTTCAAACTTTTAAACCCTGAGAATTATTACCTGGAAACATTGGAATTCCAAAATAAAACATCTATAAATATGGACACATATTTAGATACAACCAGCATAGTGACCATTGTGCTAATCTACGTAAATGTTAACATATTCATATAATTTATTTTCTCATATTTCCATTATGTATACTGGTAAACTGTCAGTTTCTGCATTCCATGATGGGTTTTATGTTGACTGAATGCACAATAGACAGAGGCATATTTTACACTGCTTATAATATTACCACACTTTTTTCTCCTTGCCTAG
Seq C2 exon
GTGCTGATCTGTGGAAATTTCAAGGGGATGAAAATTAAGCCCGGCTCAATGGGAAAGCCTTCTCCTGCTTTTGATGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030935-Acsm3:NM_016870:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(9.9=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(6.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTTTGAAGCACTGTGTCAGT
R:
CACATCAAAAGCAGGAGAAGGC
Band lengths:
190-1392
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: