MmuINT0147174 @ mm10
Intron Retention
Gene
ENSMUSG00000006576 | Slc4a3
Description
solute carrier family 4 (anion exchanger), member 3 [Source:MGI Symbol;Acc:MGI:109350]
Coordinates
chr1:75548316-75549065:+
Coord C1 exon
chr1:75548316-75548431
Coord A exon
chr1:75548432-75548868
Coord C2 exon
chr1:75548869-75549065
Length
437 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTA
5' ss Score
7.64
3' ss Seq
AAGCCTCATAACTTCCTCAGCTC
3' ss Score
2.41
Exon sequences
Seq C1 exon
TTCTCCATTGGAAGTGATGAAGATGACAGCCCAGGCCTTCCTGTCAAGGCTCCCTGTGCCAAGGCCTTGCCTTCTGTGGGCCTGCAGTCTGACCAGAGCCCCCAGCGCTCCGGCAG
Seq A exon
GTACTAGTCCCAGCTCCCTGGACCCAGCCCTCACTGAGCAGAACCCACTGCAATCCAGAGCAGGTGGCCCAAGTCCCTGACACTTGCCTGATTCCTAACCCTGAGTAGTGTCTGTAGGTATGACCCGGAAAGCCGAGAGAGTGAGGAGAGTCTCATCCGACTCCATGGTTTACAAGTGGGAGGAGGGAGCAAGAGGGGAGAAGAGAGAGTAGAGCCAAGAGGCCAAGAGTCCTCTAGGCCTGAGGTGTTGGTGAAGAGAGAGGGGTACAGGTAGACAAGCTGAGCCAGCGAGTGGGAAGGAATGAGCATGCTGGGAAAGGAGGCCTCTGTATTCACTCTTGTTCTCGAGGCTGGGGAGGGGGGCGTGTATAAGAGCTCATTAGTTCAGCAGCTCCTTGCCTCTCTCCATCAAACCTAAAGCCTCATAACTTCCTCAG
Seq C2 exon
CTCCCCCAGTCCCCGGGCCCGGGCTTCCCGAATCTCCACAGAGAAGAGCCGGCCCTGGAGTCCATCAGCCAGCTATGACCTGCGGGAGCGATTGTGCCCAGGCAGTGCCCTGGGCAACCCTGGGCCAGAGCAGCGGGTGCCCACTGACGAGGCGGAGGCTCAAATGTTGGGTTCTGCCGATCTGGACGACATGAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006576:ENSMUST00000124341:5
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
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCATTGGAAGTGATGAAGATGACA
R:
CTTCATGTCGTCCAGATCGGC
Band lengths:
310-747
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