MmuINT0147139 @ mm9
Intron Retention
Gene
ENSMUSG00000028962 | Slc4a2
Description
solute carrier family 4 (anion exchanger), member 2 [Source:MGI Symbol;Acc:MGI:109351]
Coordinates
chr5:23940933-23941578:+
Coord C1 exon
chr5:23940933-23941158
Coord A exon
chr5:23941159-23941362
Coord C2 exon
chr5:23941363-23941578
Length
204 bp
Sequences
Splice sites
5' ss Seq
AGGGTACGC
5' ss Score
8.18
3' ss Seq
GATGGAGGCCTGGATTGCAGCAC
3' ss Score
-0.72
Exon sequences
Seq C1 exon
CAATTTCATGAGGCAGCCTACCTGGCGGATGAACGAGACGACTTGCTGACTGCTATCAATGCCTTCCTGGACTGCAGTGTTGTGCTACCGCCTTCTGAAGTGCAGGGCGAGGAGCTGCTGCGTTCTGTTGCCCATTTCCAACGCCAGATGCTAAAGAAGCGAGAGGAGCAGGGCCGCCTGCTGCCCCCAGGGGCTGGGCTAGAGCCCAAGTCTGCCCAAGATAAGG
Seq A exon
GTACGCCCGCCCGAGTAGGCCTGGGCCAGGTGACACTAGCTTAAGGAGGGAGCTCTTGAGCAGTGGACGGGCCTGTAGGCACCTGACCAGAAGCCGACTACATTGTCTCTGTCTGTAGTCAGTATGATCTGCATTCATGGAGGAGGGCCTGATGGGGTGGGTGGGAGGGTGACACAGGCGCCCTGATGGAGGCCTGGATTGCAG
Seq C2 exon
CACTCCTGCAGATGGTAGAGGTGGCAGGTGCAGCTGAAGATGATCCCCTTCGGAGGACAGGCCGGCCCTTTGGGGGGCTGATCCGTGACGTGCGGCGGCGCTACCCCCACTACCTAAGTGACTTCCGCGATGCACTTGACCCCCAGTGCCTGGCTGCTGTTATTTTCATCTACTTTGCCGCCCTGTCTCCTGCCATCACCTTTGGGGGGCTACTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028962-Slc4a2:NM_009207:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.092 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PD(13.4=47.4)
A:
NA
C2:
PF0095516=HCO3_cotransp=PU(11.5=78.1)
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:
CCTTCCTGGACTGCAGTGTTG
R:
GTGCATCGCGGAAGTCACTTA
Band lengths:
300-504
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: