MmuINT0147148 @ mm10
Intron Retention
Gene
ENSMUSG00000028962 | Slc4a2
Description
solute carrier family 4 (anion exchanger), member 2 [Source:MGI Symbol;Acc:MGI:109351]
Coordinates
chr5:24440081-24440577:+
Coord C1 exon
chr5:24440081-24440250
Coord A exon
chr5:24440251-24440403
Coord C2 exon
chr5:24440404-24440577
Length
153 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGT
5' ss Score
8.54
3' ss Seq
CACCTCATCTCTGCCTGCAGGTT
3' ss Score
10.13
Exon sequences
Seq C1 exon
GCCTCTCCATGGTCATTGGGGACCTCCTGCGGCAGATCCCCCTGGCTGTGCTCTTTGGCATTTTCTTGTACATGGGAGTCACCTCCCTCAATGGGATCCAGTTCTACGAGCGGCTGCACCTGCTGCTCATGCCGCCCAAACACCACCCAGATGTCACCTATGTCAAAAAG
Seq A exon
GTTAGTTCCTGCACTTGAGGGCAGCCTTGGCCAGCCTGTACAGAGGAGGTCTGGAAATTCTCATAGTACCTCATCTCCCAGGGGAGGGGAAGGACACTCGTCCTCTTGGCTGGCTGGAATGTATGTCTAGGCTCACCTCATCTCTGCCTGCAG
Seq C2 exon
GTTCGGACCATGCGGATGCACCTGTTCACTGCCTTGCAGTTGCTCTGCCTGGCCCTGCTTTGGGCAGTCATGTCCACAGCCGCTTCCCTGGCCTTCCCCTTCATCCTCATCCTCACAGTGCCTTTGCGCATGGTGGTACTTACCCGAATCTTCACTGAGCGAGAAATGAAATGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028962:ENSMUST00000080067:21
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(11.3=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=PD(2.2=19.0)
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:
CCTCTCCATGGTCATTGGGGA
R:
TGTGGACATGACTGCCCAAAG
Band lengths:
247-400
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