Special

MmuINT0010263 @ mm10

Intron Retention

Gene
Description
acyl-CoA synthetase medium-chain family member 3 [Source:MGI Symbol;Acc:MGI:99538]
Coordinates
chr7:119767873-119768974:+
Coord C1 exon
chr7:119767873-119768146
Coord A exon
chr7:119768147-119768763
Coord C2 exon
chr7:119768764-119768974
Length
617 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGG
5' ss Score
9.26
3' ss Seq
GACCTCTCTGCTCTCCTCAGGCT
3' ss Score
8.96
Exon sequences
Seq C1 exon
CTGGATTAGTCTGCATGGAAATCTCACATGCCAAAACATTCAACAACACTGATGCTAGCTAGCTCTTGTCATCATGGTGATGTTACTCCGTGCTAGGTGTTTTCAGCGCCTAGCAATTCCTGATCCTATGAGAGTCTTGTATAAAGATTACAGAACAGCGACCCCTCAGAACTTTTCCAACTATGAGTCCATGAAACAAGACTTCAAAATAGAGATTCCAGAGTATTTCAATTTTGCAAAAGATGTCCTGGACCAATGGACCAATATGGAAAAG
Seq A exon
GTATGGAGCAAATGCCACTCGAACTTGCTTCAGTGAGTTCAACTGCAAGTGATCACATCCCCCAGGGGTAGTCAGCAGTGGCTACAGAGAGTTTCACTGCCATGAGGGGGTGATCAGTGGAAGTCAGTAGTTGTGAATGACATTTGAAGGGAGAGGGGTACTTCGGAAGTCCTGTAATGTATAGACGAGTCCCAGAACATGGACTTTCCTGGACCACAATGCCAGTGGTTTCCATCATGGCTACTTGAGAAAGCCTAGGTTATAATATTGTATTCTTTTTGTTTCTTTCCCACTCTTAAACAAAAAAGGAATAAAAAGTGACTCTAAGAGTCAAAATAGCAAGAAATGAAGTATAGATACATCCATGATGGGATGAAGGGATATAAGAATTCTAACTGTGGGGTTGAGGGGAATCATGATAAATGAGAAAAGACCTGGTCCCAGCAAACGGACATGGCTCCCAGCATGTAGAAATAGGAACCTCTGAGTGATGTGCACTTACCCCATGGATGTCCTGACTTGTGAGTTTTCTGCAGAGAATATGTTTATTAAGTCAGCTGAAATATAATTTAACTCTTTGACAACCTCTAAGTCCATGACCTCTCTGCTCTCCTCAG
Seq C2 exon
GCTGGAAAGAGACTTTCCAATCCAGCCTTCTGGTGGATAGATGGGAATGGAGAAGAGCTGAGATGGAGTTTTGAAGAACTTGGGTTGTTATCCAGGAAATTTGCCAACATACTCACAGAAGCCTGCTCCCTGCAAAGAGGAGACAGAGTAATGGTGATACTGCCCAAGATCCCAGAGTGGTGGCTTGCAAATGTGGCCTGTCTGCGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030935:ENSMUST00000063770:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact

ORF disruption upon sequence inclusion (1st CDS intron)

No structure available
Features
Disorder rate (Iupred):
  C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):

C1:
PF0050123=AMP-binding=PU(0.5=3.0)
A:
NA
C2:
PF0050123=AMP-binding=FE(16.9=100)


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
CGCCTAGCAATTCCTGATCCT
R:
AAGCCACCACTCTGGGATCTT
Band lengths:
354-971
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