MmuINT0010265 @ mm10
Intron Retention
Gene
ENSMUSG00000030935 | Acsm3
Description
acyl-CoA synthetase medium-chain family member 3 [Source:MGI Symbol;Acc:MGI:99538]
Coordinates
chr7:119773688-119774656:+
Coord C1 exon
chr7:119773688-119773895
Coord A exon
chr7:119773896-119774512
Coord C2 exon
chr7:119774513-119774656
Length
617 bp
Sequences
Splice sites
5' ss Seq
GAAGTGAGT
5' ss Score
7.97
3' ss Seq
CTGCAGTTTGTCCTTCACAGATA
3' ss Score
7.81
Exon sequences
Seq C1 exon
GGACAGTTTTAATTCCAGGAACCACTCAGCTGACCCAGAAAGACATCCTCTATAGACTACAATCTTCAAAAGCTAAGTGCATTATTACCGATGATACTTTGGCCCCAGCAGTAGATGCCGTGGCAGCTAAATGTGAAAATCTCCACTCCAAATTAATTGTGTCTCAGCACTCCAGAGAAGGCTGGGGGAACCTCAAGGAGATGATGAA
Seq A exon
GTGAGTACCCTGAATTTTAGAACAGTGCCCTACAAAGAAAGGCAATAATGAAAAAAAGTATCCAATACAGTAGCAGTGGGGTCAACGCAAAGAAAAGCAGTAAATGATAAGAATAATCAGTGATTGTTACAGAACTAACAGTTGGCAGTGCAAGCTTTTCGGTGAGAAGGGGTCTGCTGGCGATAAAATAAATAAGGAAATACAAAGCATTCACTGAGGTAGAGAACGGTGTACAAGGGGCTTATTGAGGAGTTCTCTTGTGAAAGATGGAAAGGATGAAGGACTGGTCAGAGGAAGAAATTGACTTTCTATGCATTCCCTGTGAAGCTCTCAGCGAACACCCTGGGAGTTCTGGGCTGTGGATGGATCTCAGGGCTGTGACAGTCTAAATGCCCACAATGATCAGTTTTGGATGAGGGTTCTCCCTAGCAGATGCGTGATCTTGAAGGTGGATGCTCACATCTCACAAGTCAAAGGATGGAAACAGAGGTAGCTTTTACCTTGGGGGTGAATCCAAGTCACTGATTCAGAAGTTGAAGAGGCCCAAAGCAGATAGGTTTTCAAATCCTCCTCAGAGGTCATTCATTCATAAAAACACTGCAGTTTGTCCTTCACAG
Seq C2 exon
ATATGCCAGTGACAGCCACACTTGTGTGGACACAAAACACGACGAGATGATGGCCATCTACTTCACCAGTGGGACAACTGGGCCTCCTAAGATGATTGGACACACCCACAGCAGCTTTGGTTTAGGATTGTCTGTCAATGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030935:ENSMUST00000063770:5
Average complexity
IR
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(16.7=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(11.6=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:
AATTCCAGGAACCACTCAGCTG
R:
CTTCCATTGACAGACAATCCTAAACC
Band lengths:
342-959
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types