MmuINT0147147 @ mm10
Intron Retention
Gene
ENSMUSG00000028962 | Slc4a2
Description
solute carrier family 4 (anion exchanger), member 2 [Source:MGI Symbol;Acc:MGI:109351]
Coordinates
chr5:24439737-24440250:+
Coord C1 exon
chr5:24439737-24439990
Coord A exon
chr5:24439991-24440080
Coord C2 exon
chr5:24440081-24440250
Length
90 bp
Sequences
Splice sites
5' ss Seq
TGGGTATGC
5' ss Score
6.57
3' ss Seq
TGTTTTTCCCCTTTTCCCAGGCC
3' ss Score
10.47
Exon sequences
Seq C1 exon
GCTGATCATCTCCAAGAAAGAGAGGATGCTGCAGAAGGGCTCTGGCTTCCATCTCGACCTGTTGCTCATTGTAGCCATGGGTGGCATCTGTGCCCTCTTTGGCCTGCCTTGGTTGGCCGCTGCCACTGTCCGCTCTGTCACCCATGCCAATGCACTCACTGTCATGAGCAAGGCTGTGGCACCTGGGGACAAACCCAAGATTCAGGAAGTCAAGGAACAGCGTGTGACAGGGCTGCTGGTGGCCCTGCTTGTGG
Seq A exon
GTATGCCGCCCATACTCTGAACCTCACCTTCCATGGGGGGGTCCCCAGGTTTACTATGGAGGGGACCAACTGTTTTTCCCCTTTTCCCAG
Seq C2 exon
GCCTCTCCATGGTCATTGGGGACCTCCTGCGGCAGATCCCCCTGGCTGTGCTCTTTGGCATTTTCTTGTACATGGGAGTCACCTCCCTCAATGGGATCCAGTTCTACGAGCGGCTGCACCTGCTGCTCATGCCGCCCAAACACCACCCAGATGTCACCTATGTCAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028962:ENSMUST00000080067:20
Average complexity
IR
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:
PF0095516=HCO3_cotransp=FE(17.1=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(11.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCCAATGCACTCACTGTCAT
R:
AAATGCCAAAGAGCACAGCCA
Band lengths:
173-263
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