MmuINT0147136 @ mm10
Intron Retention
Gene
ENSMUSG00000028962 | Slc4a2
Description
solute carrier family 4 (anion exchanger), member 2 [Source:MGI Symbol;Acc:MGI:109351]
Coordinates
chr5:24434338-24434749:+
Coord C1 exon
chr5:24434338-24434503
Coord A exon
chr5:24434504-24434634
Coord C2 exon
chr5:24434635-24434749
Length
131 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAAG
5' ss Score
4.41
3' ss Seq
CCTCCCATCCCGTCCCCCAGCGT
3' ss Score
7.59
Exon sequences
Seq C1 exon
CCACCCAAGTGACGAGAAAGAGTTCTCCTTCCCCCGAAACATCTCAGCGGGCTCTCTAGGCTCTCTACTGGGGCATCACCATGCCCAGGGGACCGAGAGTGATCCTCATGTCACTGAGCCTCTCATTGGTGGTGTTCCTGAGACCCGACTGGAGGTGGATAGAGAG
Seq A exon
GTGAAGGGGAGTGGGTCCTGCCCAGGGGCTGGCAGGAGGGTCTGAGCAAACCCAATGTGAAATGCAGCTAGGCATGTGGGAGGTGCTGCTTGGACTGAGTTCTGTCCTGTTCCTCCCATCCCGTCCCCCAG
Seq C2 exon
CGTGAGCTACCACCCCCAGCACCACCTGCAGGTATTACCCGCTCCAAGTCCAAGCATGAGCTGAAGCTGCTGGAGAAGATCCCTGAGAATGCGGAGGCTACAGTGGTCCTCGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028962:ENSMUST00000080067:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.714 A=NA C2=0.462
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(20.4=100)
A:
NA
C2:
PF075658=Band_3_cyto=FE(14.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCCCCCGAAACATCTCAGC
R:
CACTGTAGCCTCCGCATTCTC
Band lengths:
244-375
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