MmuINT0147161 @ mm9
Intron Retention
Gene
ENSMUSG00000006576 | Slc4a3
Description
solute carrier family 4 (anion exchanger), member 3 [Source:MGI Symbol;Acc:MGI:109350]
Coordinates
chr1:75549831-75550417:+
Coord C1 exon
chr1:75549831-75550056
Coord A exon
chr1:75550057-75550198
Coord C2 exon
chr1:75550199-75550417
Length
142 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGA
5' ss Score
6.8
3' ss Seq
AATCTTTCCCGTTTCCCCAGAGC
3' ss Score
9.42
Exon sequences
Seq C1 exon
CTCTTTCACGAGGCTGCCTATCAGGCAGATGACCGGCAGGACCTTTTGGGTGCCATCAGCGAGTTTTTGGATGGTAGCATTGTGATTCCCCCGTCGGAGGTGGAGGGCCGAGACCTACTACGTTCGGTGGCTGCCTTCCAGCGAGAGCTGCTGAGGAAGCGGCGGGAGCGGGAACAGACCAAGGTGGAGATGACCACCCGGGGGGGCTATGCGGCCCCTGGCAAAG
Seq A exon
GTCAGACCCCAGCCCACTCCTGCCTCTCCGAGTCCTGTACGCTTTTGCCATCACCGCCCCTAGTGCTGTGTGGAACGCAGCCAGGGCCTCCAGACAGGATGGAGTGGCCTGAGTTTCATCAGAATCTTTCCCGTTTCCCCAG
Seq C2 exon
AGCTGTCTTTGGAGATGGGGGGCTCCGAGGCAACCTCTGAAGACGATCCCCTGCAGCGGACAGGCTCAGTGTTTGGGGGGCTAGTGCGAGATGTGAAGCGCCGTTACCCGCACTACCCCAGTGACCTGCGGGATGCTCTGCACTCCCAGTGTGTGGCTGCTGTGCTCTTTATCTATTTCGCGGCCCTCAGTCCTGCTATCACCTTTGGGGGGCTTTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006576-Slc4a3:NM_009208:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.163 A=NA C2=0.176
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PD(13.3=47.4)
A:
NA
C2:
PF0095516=HCO3_cotransp=PU(28.1=77.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTAGCATTGTGATTCCCCCG
R:
CTTCACATCTCGCACTAGCCC
Band lengths:
252-394
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: