MmuINT0147157 @ mm9
Intron Retention
Gene
ENSMUSG00000006576 | Slc4a3
Description
solute carrier family 4 (anion exchanger), member 3 [Source:MGI Symbol;Acc:MGI:109350]
Coordinates
chr1:75542841-75543496:+
Coord C1 exon
chr1:75542841-75542957
Coord A exon
chr1:75542958-75543346
Coord C2 exon
chr1:75543347-75543496
Length
389 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGT
5' ss Score
9.65
3' ss Seq
CCCCGCCCTCCTTCCTCAAGGCT
3' ss Score
8.23
Exon sequences
Seq C1 exon
GTGCACCCGCCCCTCCTCCCCCCCCCCCGCAATGCGTGGGGCGCCTGGAGAGGGGTCTTGCGGGCAGGTGGGATCCTGCGGGGACCCGAGCGCGGGGCCCACGCTGGCCTGGTCGGG
Seq A exon
GTAAGTCAGGGATCGTCCACTCCCATTGTGCGGCCGGGCGGCGGCGGGCTGGCACAGCCGAGCGCTAGGAGGTGGAGCCGTGGACTGCAGGCTCCGGCGCCTGCGTCCGCCTGGCCGGGCTCTGCGCGGCGAGAGGCCGGACGGGAACCCGGCAGCCGCGCCCCGGAGCTTGCGGGGAGGGACATGGGGCGCGGCGGCTCTCCCAAGCCCCGCAGGTTCCGGAGCCCGGAGGTACTTAAGGGCAAGGCGTGGGCGCCGGGCCGGGTAGGGACAGCGGACTAACATGGACCGGGTTGGGCCTCGGAAGGGAGAGCGGGCTGGGCACCGGGATGGAGCACCCCGGAGGGGGCCCACCAGCGCAATTTCTGACCCCGCCCTCCTTCCTCAAG
Seq C2 exon
GCTCCCCAAGAGGTCTCTGCAGCGCCCCCTTCTTCTCACCCAGGGTTTGGGTCCCATAGTGATTGAGAGACTCCTAAGTCTTCAGTCTTCAGCCCTGCCATGGCTAATGGGGTGATCCCGCCGCCCGGGGGCGCCTCCCCCCTACCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006576-Slc4a3:NM_009208:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=1.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAGAGGGGTCTTGCGG
R:
GGATCACCCCATTAGCCATG
Band lengths:
190-579
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: