MmuINT0010268 @ mm9
Intron Retention
Gene
ENSMUSG00000030935 | Acsm3
Description
acyl-CoA synthetase medium-chain family member 3 [Source:MGI Symbol;Acc:MGI:99538]
Coordinates
chr7:126918997-126920690:+
Coord C1 exon
chr7:126918997-126919076
Coord A exon
chr7:126919077-126920566
Coord C2 exon
chr7:126920567-126920690
Length
1490 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
ACTCCCTGTTATTGGAGAAGCTA
3' ss Score
-0.7
Exon sequences
Seq C1 exon
ACCCTCTCCAAGTTCCCCATCACTGTCTTCTGTTCTGCACCAACTGCCTACCGGATGCTTGTTCAGAATGACATGAGCAG
Seq A exon
GTAAGACATGTTTGCAAATGGATATTCAGTCCAGGGGGAGAGGAAGAGGAAGTTCAAAAATGAAAGACTCATTTGTCCAAAACCACAGATCTGACCAGTTGGTACACTACAGTTCAGTGTTTTCTTTCTCTTGCCCCTTTGAGTTCTTCCTGACATTTTGTAGATGGTTGCTGTGTCCAGAGCAGGCTCTTGTAAACTTGGAGAGGGGAGGGAAGATTAGACTGTGTCTAGAGCTATGAATGTGATGGTTATAGTTCTTTTTAAAACAGAGGAAGGTATTTAATCTTTGGAGTGACAACTATTATCTGAGCTGAGATAATAGACAAGTTGTTCCATTTTGCAAATTCTCAGAGAGAACAGAAGTAAGAATGAAGGCTTTAAAGCTACTGTGACTCCATTTTAAATGCCTGATTATTGCTCTGAAGATACTGTTACTGTGTTCACAGCTCAGCAATTCATGTGCTGATGCAAAGCACAGCTCTTGCTCCAAAGAGAGTAATATATAGTTTATTCTGAGCCAAATATAATTGACTATAGGCCAAGGACATGGATTAAGATATGGAAGTGACTACATAAGCTTTCTAGTCACAAAACGGAAGGGAGGCATAAATCAATGCATTTGCCCATACACTGGTGAGAGCATCAGTTGGTAGCCTATAAGGGAGCCCAAAAGGAATTTCTTCTTTAGGTTTCTAGTGTTATAATAGCCTTGGTTTTAGTGATTGTGAAGACCAGTAGTCTTCTAAGTTTAACAATATATTCCTCCAAAAGTTTTACCTAATAAAATGAGGATAAGATTAGATACGTGATTTAGTAATATACGATTAGTAAGAGTGCCGAGGATAATTCTGGCCCCCCATCCTTGACATTTCATCTCACCGCACTCATGATGCACTGCTCTTCAGCCTGTGAGGTCTTTCACATAGATGTGCCATTTTCAGAGTACCTTGGCTTGCAGTTGTGAGATAATTTTTAATTAGTGATTTAAAATACCATTATTGAACTGTGTGTAGTGGTGTACTTAACCCCAGCACTTAGGGAGGCAGGGACTGAATTCAAAGTTAGCCTAGTTTACAAAGCAAGTTCCAGGGCTACATGTCTATAGGTGTGTGTGTGTGTGTGAGAGAGAGAGGGGGGGGGGGAGAGGGAGAGGGAGGGAGAGATGGGCGGAGACTGGGGGGTAGATAGACAATGGGGGTATCATCTCTAAAGATAGCGCTTCTTTGCAACAAGTGATCTCCACCCAGGGGAGGGAAAAGAAGAGAAAAAAGAAACCTGACATTACAGAGATCTTCATATGGCATCAGGTATTTCTTTATATTAGAATGGCCTGCATATGGTCTCTAGTGTTATTTTCCATTATTATAGCTATCTGTTTCTGGCATTAGGTGCTACATTGTATCAGAACAATCTGCTTATTATGTATTCCCAATTCCCATGTCTTGCCATTTCTCTTTCTCTACATAACTCACTCCCTGTTATTGGAGAAG
Seq C2 exon
CTATAAGTTCAACAGTTTGAAGCACTGTGTCAGTGCTGGAGAACCTATTAACCCTGAAGTGATGGAACAATGGAGAAAGAAGACGGGCCTAGACATCTATGAAGGATATGGACAGACAGAAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030935-Acsm3:NM_016870:9
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(9.9=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:
CCCTCTCCAAGTTCCCCATCA
R:
CGTTTCTGTCTGTCCATATCCTTCA
Band lengths:
203-1693
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: