MmuINT0010240 @ mm9
Intron Retention
Gene
ENSMUSG00000033533 | Acsm1
Description
acyl-CoA synthetase medium-chain family member 1 [Source:MGI Symbol;Acc:MGI:2152200]
Coordinates
chr7:126796068-126797969:+
Coord C1 exon
chr7:126796068-126796147
Coord A exon
chr7:126796148-126797845
Coord C2 exon
chr7:126797846-126797969
Length
1698 bp
Sequences
Splice sites
5' ss Seq
CAAGTATGT
5' ss Score
7.44
3' ss Seq
CATGCGTGCCTTTCCCAAAGCCT
3' ss Score
6.63
Exon sequences
Seq C1 exon
GTACTGTTCAAATACCCCATCACTCAGTGCCTTGCTGCCCCAGGCGTGTATCGAATGGTTCTTCAGCAGAAAACCTCCAA
Seq A exon
GTATGTAGCAGTGGCTTGTAACCTCAATCTCTGGGTAGGATTTTAAATGTTTCTGCTGTGCCAAGGTTTGGTTTTTTCTTTGGTTCTTTTATTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTCTGTCTGTCTGTATGCCTATGTCTGTGTGTTTTAATAATTATTAGTCAAATAAGTAAGATCAACACCTGGGCCTTTAGTCTTACACCTTTATAGATTTATTCATTTGTATGTGAGTTTATTTTTGTGACATACAAAAATAAAAATACAAAATGCCTATGGTGAAAATTTACAAATTGATGAACTATTAAAAATGCCAGTGCAATCACTCAATCACGCACATGTGTCAGAATAAATAGGACACTGTCAATGCCTTAGAGACTTCTATGTGCCTCCTTGTGTACCCTAAATAAAATGACTATTTTCTCGACTGTAAGAAATATTCCTAAGAAAATGGGTCTGCTTTTCAAGCTTTCAACTTTTTTTATTAGATATTTTCTTTATTTACATTTGAAATGTTATCCTCTTTCCGAATTTCCCCTCTGAAAAACCCCTAACCCCTCCCCCCTTCCCCTGCTCCCCAACCTACCCACTCCCATTCCTGGCCCTGGTCTTCCCCTATAGTGGGGCATAGAACCTTCACAGGACTTAGGGCCTCTCCTCCCATTGATGACCAACTAGGTCATCCTCAGCTTCGTATGCAGCTAGAGCCACATGTCCCACCATGTGTTTACTTTGATTGGTGGTTTAGTTCCAAGGAGCTCTGGGGGTACTGGTTAGTTCATATTGATGTTCCTCCTGTGGGGCTTCAGACACCTTCAGCTCCTTGAGTACTTTCTCTAGCTCCTTCATTGGGGACCTTGTGCTCTGTCCAATGGATGATTGTGAGCATTCACTTCTGTATTTGCCAGGCACTTTTATATATACAATCATGCATTATTCTGTGGCATCTGACTTCATTTTCCAAATCATGTGTCTACAATGTATTCATGTTATGTATTTTCTAGCCCTGACTTTCTTTTTTTTTCTTTTTTTCTTTTTTGGTTTTTAGAGACAGGGTTTCTCTGTGTGGCCCTGGCTGTCCTGGAACTCACTTTGTAGACCAGGCTGGCCTTGAACTCAGAAATCTGCCTGCCTCTGCCTCCCGGGTGCTGGGATTAAAGGCGTGCACCACCACACCCATAGCCCTGACTTTCAACGCTCAGGAAGAAATAGAAAAGGCCCTCCATGAGTCCAGTTCATCCCTCACAGAAGGCAGTATAGTTAGTTCTGCTACACCCTAGCTTCCCTTGGGGTCTCTTTCCTTAGCATGTATGGTTTATAAAGTTGACCCTCTTGGACACATAGGAAGATTTTCTAGGGTAGCTTCTTAAGAGTCTTGTGAGTTCTTGTCTCTCTCTTGTTATATCAGCATCCAAACTTAACCAAAACATCAGTGATATGACCCAGCATCTAAACCATCACTCACTTACCCCCTGCCAGAAACATGAACAGGGATTTACAGAGAGAAATGGCATCTGGCTGGCTGTGACCATCAGTAAAATGACAGAAAGTAGATTTAAAAATGAGAAAGCAGGCAGATAGATGATCGGAATAACAAAGCAGTATGCTCTTGATAATTTGTGTCTCCTGCAAAGCATCCATGACCTGACATGCGTGCCTTTCCCAAAG
Seq C2 exon
CCTCAGGTTCCCCACCCTTGAGCATTGCACTACTGGTGGGGAGAGCCTGCTGCCTGAGGAGTATGAGCAGTGGAAGCAAAGGACAGGTCTTTCCATCCACGAGGTCTATGGACAGTCAGAAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033533-Acsm1:NM_054094:7
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(6.3=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(13.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGTTCAAATACCCCATCACTCA
R:
TCTGACTGTCCATAGACCTCGT
Band lengths:
198-1896
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: