MmuINT0147175 @ mm9
Intron Retention
Gene
ENSMUSG00000006576 | Slc4a3
Description
solute carrier family 4 (anion exchanger), member 3 [Source:MGI Symbol;Acc:MGI:109350]
Coordinates
chr1:75545444-75547227:+
Coord C1 exon
chr1:75545444-75545640
Coord A exon
chr1:75545641-75547078
Coord C2 exon
chr1:75547079-75547227
Length
1438 bp
Sequences
Splice sites
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
3' ss Seq
CACGTCTACCTTGCCCACAGGTC
3' ss Score
10.9
Exon sequences
Seq C1 exon
CTCCCCCAGTCCCCGGGCCCGGGCTTCCCGAATCTCCACAGAGAAGAGCCGGCCCTGGAGTCCATCAGCCAGCTATGACCTGCGGGAGCGATTGTGCCCAGGCAGTGCCCTGGGCAACCCTGGGCCAGAGCAGCGGGTGCCCACTGACGAGGCGGAGGCTCAAATGTTGGGTTCTGCCGATCTGGACGACATGAAGA
Seq A exon
GTGAGTGAGACCCCGTGGCGGGACCTTGAAGAGGGTGTCCCCACCTAGTCCTTTCCATAGTAGCCCCGTGGCAGAGAGAGCTTCATCTGACTAAGCCACCGCTCTTCCAGAGCTGTTTTCCTTAGTGTCACTCGGGAGTGCTCTCTGAGTCACCTATTGCATAAATCGACCCCCTTGGAGGAAGGCTCTCCTGAGATCTCTTCCTTTGTAAACGCCATGTTAACCCACCTGCCTGGAGGCTGAGGGCTGAGCTGCCATTCCTGGCCTCACCTCTTCCCAAGCCAGGCCTGCAGCTGCCCTCACTCCTTCCTACCACCCTTGCCCTGGCCTGGCTGTGATCTCGGCACATTCCTTCCATCTTATCAGTGCCTGGTTTTGGTGCCACCTGTCATCACCCACGGGGCTCTGTGCCCAGGCAAGGGGCATCGCTGGTCTCCTGCCCTCCTCCTCCTCCTAAGATTCACAGGGTGTGGGCGGGGGCAGAGGTGGGGGGAGTTAGGGCTTTGAGCTCAATACGTCATGGAAAGTTGCCAGGGCCTGAGGACAGGGACAGGAACAATCCGATGGTAGCGGCAGTGGGGGGTCATCGGGAGGGTGTATTTACAGATCTAGGGTGGGGGCTGATAACGACAGGATCAGACTTGGGGGACGAGGAGAATTGGAAGCAGGAAACCTTACCACATCCAGCTCTGTGTGGGCAAAGGCAGCTCCGGCAGGGGCTCCCAATTCTTGGGACAGCCAGGGCTGAGTGAGGCCTTGGCCACCAGGGGAATGACAAGCCCGCTGGACAAGGTCATGGAGCCCAATGGGACTCTGAGTCCTAAGCCCGGGGACACTGAAGACCAAGGCCCTGGGAGGAATCCAAGCCCCAGCGCTGGTGACTTAGTGGCCTCAGAGGATTTGGAAATGTTTGTACTGGACTTTGAAGACTATGGCCTATGGGAGCCCATGAGGGGCCACCCGAGCCCCCTGGCAGGGGTAGCTGCTTGTGAGTAACTAGGCAGCTAGCCTCTCTCCAGCTGTTCGTCTGGGCAGGGCAGGTGGGAAGATGACCAAGCAACCCTTCATAAGCTTGTTTGATAGGCACTAGTGGGGCTGGGATTCGGGTGCTGTGGATATGAAAGTGTTGGGAGCTAGGTGTCTAGAGACAAGCATTTGGACCCATGGCCCCACAGGTTGTGGCCAGGACTTCAGGGTATGGATAGGACTGAAGGCTTAAGTGGGATCTGCCTTTTGTTGTGACTTGGCCAGTGCTACAATGTTGCTCTGTACTGTGCCTTTCCTCTTCTGAGACTGTTTCCACATCTGTGAAATGGCCACCTGGAGAATGTGTGTGGGATTACAGCCAGGTGGACCTGGTGGGTACAAAAGGGGCCTGGAGCATGTGGGCCATGACCTTGAGATGGATCCTTGGGGCCCACGTCTACCTTGCCCACAG
Seq C2 exon
GTCATCGGCTGGAGGATAACCCCGGGGTGCGGCGACACTTGGTGAAGAAACCATCCCGGATACAGGGTGGGAGAGGCAGCCCCAGTGGCCTGGCGCCCATCTTGCGCAGGAAAAAGAAGAAGAAGAAGCTGGATCGGAGGCCTCATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006576-Slc4a3:NM_009208:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.801
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GGGCTTCCCGAATCTCCACAG
R:
CTCATGAGGCCTCCGATCCAG
Band lengths:
326-1764
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: