MmuINT0147170 @ mm9
Intron Retention
Gene
ENSMUSG00000006576 | Slc4a3
Description
solute carrier family 4 (anion exchanger), member 3 [Source:MGI Symbol;Acc:MGI:109350]
Coordinates
chr1:75553848-75554375:+
Coord C1 exon
chr1:75553848-75554017
Coord A exon
chr1:75554018-75554201
Coord C2 exon
chr1:75554202-75554375
Length
184 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGG
5' ss Score
6.23
3' ss Seq
AGACTAAGCCTGTACCCCAGGTG
3' ss Score
1.39
Exon sequences
Seq C1 exon
GCCTGTCTATCGTCATGGGAGCTGTGTTGCGCCGGATCCCATTGGCTGTACTCTTCGGGATTTTCCTGTACATGGGCGTCACATCACTGTCTGGTATCCAATTGTCCCAACGTCTGCTGCTCATTTTCATGCCAGCAAAGCACCATCCTGAGCAGCCCTACGTGACCAAG
Seq A exon
GTCAGGCCCAGATGCATGGAGTTGGGGACATGGTTGAGTTGATGGGAGTGGGTCTGGAGGGACTCCTTGGCTAGGGATGAGCAGAAGGAAGATAAAGATAACTGGGACCCAGAGAGCCATGTTCCCCAAGGAGTGGGTGGGGCCTGAATGGCCATGGTGTAATGAGACTAAGCCTGTACCCCAG
Seq C2 exon
GTGAAGACATGGCGGATGCACCTGTTCACCTGCATCCAGCTGGGCTGCATTGCACTTCTCTGGGTGGTCAAGTCAACGGCGGCCTCGCTGGCCTTTCCTTTCCTGCTCTTGCTCACGGTGCCTCTGAGGCGTTGCCTTTTGCCCCGGCTCTTCCAGGACAGGGAGCTGCAGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006576-Slc4a3:NM_009208:21
Average complexity
IR-S
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(18.7=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=PD(3.7=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:
CGGATCCCATTGGCTGTACTC
R:
GAGCAGGAAAGGAAAGGCCAG
Band lengths:
246-430
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: