MmuINT0147150 @ mm10
Intron Retention
Gene
ENSMUSG00000028962 | Slc4a2
Description
solute carrier family 4 (anion exchanger), member 2 [Source:MGI Symbol;Acc:MGI:109351]
Coordinates
chr5:24429416-24429948:+
Coord C1 exon
chr5:24429416-24429578
Coord A exon
chr5:24429579-24429703
Coord C2 exon
chr5:24429704-24429948
Length
125 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGG
5' ss Score
4.51
3' ss Seq
CAAGCCCCTCCTTCTTGCAGACC
3' ss Score
9.47
Exon sequences
Seq C1 exon
CCAGAGCCAGAGAGCCTGAGCCCCGGAACACCTGGGTTCCCCGAGCAAGAGGAAGATGAACTTCGTACCTTAGGTGTGGAGCGGTTCGAGGAGATCCTCCAGGAGGCTGGATCCCGGGGAGGAGAAGAGCCAGGACGAAGCTATGGAGAGGAAGACTTTGAAT
Seq A exon
GTGAGGAGGCAGACAGGGAGGGGAGGCTGAGGGGTCAGGGGAGGCTGTCCAACAGTGAATTCGCTGGGTAGTAGTGGGAGAGAGGAGGCTGGGCCTGCGTGCAGCCAAGCCCCTCCTTCTTGCAG
Seq C2 exon
ACCACCGCCAGTCCTCCCACCATATCCATCATCCGCTATCCACCCACCTGCCTCCTGATGCCCGCCGTCGCAAGACTCCCCAGGGCCCAGGACGGAAACCTCGGAGGCGCCCTGGTGCCTCTCCCACTGGAGAGACCCCCACTATTGAGGAAGGGGAGGAAGATGAGGAAGAAGCTAGTGAAGCTGAAGGGTTCAGAGCTCCCCCACAACAACCATCTCCTGCTACTACACCCTCTGCAGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028962:ENSMUST00000080067:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TACCTTAGGTGTGGAGCGGTT
R:
CCCTTCCTCAATAGTGGGGGT
Band lengths:
253-378
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