MmuINT1003737 @ mm10
Intron Retention
Gene
ENSMUSG00000047026 | Acsm4
Description
acyl-CoA synthetase medium-chain family member 4 [Source:MGI Symbol;Acc:MGI:2681844]
Coordinates
chr7:119712842-119714565:+
Coord C1 exon
chr7:119712842-119712961
Coord A exon
chr7:119712962-119714257
Coord C2 exon
chr7:119714258-119714565
Length
1296 bp
Sequences
Splice sites
5' ss Seq
AAAGTAGGT
5' ss Score
6.84
3' ss Seq
CTTGTTTTTCCGTCAATCAGGTG
3' ss Score
8.35
Exon sequences
Seq C1 exon
GTGGTGAAGGCATTTATTGTACTAGCTGCACCCTACAAGTGCTCCAACCGTGAGAAGTTAACCGCTGAACTTCAGGATCATGTGAAAAATTCAACAGCACCTTACAAATACCCAAGAAAA
Seq A exon
GTAGGTGCAAGTTACCTCTGAGTTGAATTTTGACTTTACACTTGCTGTGTATCCTAGAAGATACATCTTGAGTTACTCTGAAAGTTTTTGCTTAAAGTGTTTTATATTTAGGATATTACAAGTGATCCTGTGTTGCAGGGGCTGGGTGTATGACTAAAAAAAAGCACTTGCTGTAAAAGTGTGAGGCCTGGAGCTCAGATTCCCAGAACCCTTGTACATGCATGGGTGGGTGTGCTGGCTCAACTGCCTTGGAAGGCAGAAGTAGAAGACCAGAGCAAGACCAGTCATATCTGAGAACTCTGGGTTTGACTAAGAGACCTGCTCTGTTAGGTGGAAGAGTTAACTGAGGATATGTGTGTGTGCCCATATAGGTGTGTTCACACATGCAAAGAAAACGCAGATGGAAAAAAGAAAAAAATAGACTGTAATACTAAGAATATTTTCAGGACTCATAAAGGCCATTTTATATGGAGAAGGGGGGTGGAAGTTAAGAATCACCAAGTTCCTAATTTAGATGTGGCACCTGTTCTTCAGAGTGAAACAGGCTATGCTACCCCTTTAAGCCCAAGATGCTCAAGTAGCCCTATTTAAGCCTCAAAAGCATACACATATGCGCACGCGCACACACACACACACACACACACACACACACCATACACATAGAGGATTCTTCCTGAACCTTTCTACAAAGGCAGAAGGACAGAAGAACAAGCGCTTATAAAGACAAGGATGGTTGCAGTCCCTTCTGGCTCTGGCGTACTCTCAGCTGCACTCCACTGGTTAATTATAAGACCATTTCACCATTTGATTACAAGACCATTTCATCATTTGAGCCAAAATACAATTCATGTTAGTGATCTGATCCAACCATCTTCACACTTCTTCCATTAAAAACCTACATTGGTAACTTTGACTTTCAGAAGAGATGTGAAGACATGTAAAGGATATTTGAGAGAAGGAATCAAAGACAAAAATGTATGGCCAAGTCCGGATTAAGGTGAAACCTCTACTAACTCTATAAGTCATCCCTAAGATTTTCCTCAGACTCTTTAGGTCCCAGATCTTTAAAGACCAACATTTTAAGAGGTCTTTTCTCTGAATCGGGTGTAGTAGAAGGCAGTTGGGTTCTAGGTGTAAACAGAAGAAAACCAAAGGAAGAAGAGATTTACTTTTGGAAAGATAGCAAAGCTGGGAAGCTCCCATTTTAACCCTTAGCGCAGGGTTCCTATGATTGCACTGACTGCTAGGATAAGACACAGGCAATCAAATGCCTCCTCTTGTTTTTCCGTCAATCAG
Seq C2 exon
GTGGAATTTGTTCAAGAACTCCCAAAGACAATCACTGGGAAAATCAAACGCAACGTGTTAAGAGACCAGGAATGGGGAAGAGCATAGCTGGATGAGAACCTTGCTAGAAGTGATGCGGTTGGTTTCAGTACCAGCTTCCTGATAGTTCAACGGCTACTCTTAAAATGCTTGAACATTTTTTTTCCTATTTCACTCTTAAAATGCTTTGTCTTTCCTGTTTCGCTCTTAAAATGCTTTAACACTTGTTTTTTTCCTGCTTGAAAATAGTTCTATCTAGGAAAACAATAAAGAAACAACCAAAATCTAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047026:ENSMUST00000047045:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.025 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF131931=AMP-binding_C=FE(48.1=100)
A:
NA
C2:
PF131931=AMP-binding_C=PD(16.0=44.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTGAAGGCATTTATTGTACTAGCT
R:
GCGAAACAGGAAAGACAAAGCA
Band lengths:
342-1638
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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