MmuINT0010259 @ mm10
Intron Retention
Gene
ENSMUSG00000030935 | Acsm3
Description
acyl-CoA synthetase medium-chain family member 3 [Source:MGI Symbol;Acc:MGI:99538]
Coordinates
chr7:119779603-119780877:+
Coord C1 exon
chr7:119779603-119779704
Coord A exon
chr7:119779705-119780749
Coord C2 exon
chr7:119780750-119780877
Length
1045 bp
Sequences
Splice sites
5' ss Seq
GTAGTAAGA
5' ss Score
3.51
3' ss Seq
AAATGCTACTTATTTTGCAGGAT
3' ss Score
7.77
Exon sequences
Seq C1 exon
ATTTTAGATGAAAATGGTGCCACTCTTCCTCCTGGACAAGAAGGGGATATTGCTCTTCAAGTTCTTCCTGAGCGACCATTTGGCCTTTTTACTCATTATGTA
Seq A exon
GTAAGAGCTTTATTTTTAAAATATGTTTCCTATTTATTCCTCAAAAGTATAGTTCCAGCATCTGGTATACAGAAGCAGAGAGGCCACGGATTCAAAATCATCCTCAGTTACTACAAAGCTAGTTTGAGGGCAGGTGAGACCCTCTACCACAAGTATTTGGTCACCACTCCTATTTTTATAAAACAAACCTAGGAATTTTGTCCTTCCTTGAGAGATTCATTGCTCTGAATAATAGTCCCAGAGACAGGTAATCAAAGAAACAATGTTCTTGCCAAATAGCACATTGGTGCCCTCTCCTTGGAAGTAAACCATCACAGGTAGCTCTTAGCGATGCTTTCCTAACATCCGTAGACCCTGTTCAGCTAGCAAAGGGCACACACACACACACACACACACACACACACACACACACCCCTCCCTATTTTCCTGACATCTGATTAGCTCTCCCCCACTCCAGAGCAACTAGAGAAAGAAGAAATGGGGCCACAGGATGAAGTAAATTCATTTCACTAGAAGCTTTCTTATCTCTAACCATGGTATACAAATTAGAACAACATTTCTATCAATATACTAAGAGGTCCAGACCATACTTGCCAGTGACCTCTATGGAAGGCAGCAATATTTTGCTTGTTTTCCTCTTATGCCAGTTATAGAACTGGTCTCTTCTTATGCAAACCAAACCATGCCAAAGAATACCTCTGCTCGGAATTAAGCATTGTGCATTCTTTTAACCATCTCTTTCCACGATAGTGTTAGGTATTATTTAGAAAAAGGCTTAATTGTGCCTACTCTCCAAATCTTAGAGATGCTGCAATATTTTTATTTTAGGATCTACATAAAACATTCTCCAGAAGTTGCGCCAAGTCTTTGCAACTGTTATTTCTTTTATCCATGCTTGAAATTCATTCCTACTTGACCCTGGCTCCTCTTCATTCTGAGGCTTCTTAAAGGAGCCAAACTTTCTTTTTCTTTGAACATTTAAAGAATTACTGGACAAAAGAGTTACATTCGTAATAATATGAACAAAATGCTACTTATTTTGCAG
Seq C2 exon
GATAATCCTTCCAAAACGGCTTCAACTCTACGAGGGAGTTTCTACATTACTGGGGACAGAGGATATATGGATGAAGATGGCTATTTCTGGTTTGTTGCAAGATCAGATGATATCATATTATCTTCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030935:ENSMUST00000063770:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.099 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(8.0=100)
A:
NA
C2:
PF0050123=AMP-binding=PD(9.9=95.3)
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:
TTTTAGATGAAAATGGTGCCACTCT
R:
ATATCATCTGATCTTGCAACAAACCA
Band lengths:
214-1259
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