MmuINT0147149 @ mm9
Intron Retention
Gene
ENSMUSG00000028962 | Slc4a2
Description
solute carrier family 4 (anion exchanger), member 2 [Source:MGI Symbol;Acc:MGI:109351]
Coordinates
chr5:23946222-23946765:+
Coord C1 exon
chr5:23946222-23946395
Coord A exon
chr5:23946396-23946489
Coord C2 exon
chr5:23946490-23946765
Length
94 bp
Sequences
Splice sites
5' ss Seq
TGTGTAAGC
5' ss Score
4.52
3' ss Seq
TCCTTTCTGTCTCCTCACAGCTG
3' ss Score
12.71
Exon sequences
Seq C1 exon
GTTCGGACCATGCGGATGCACCTGTTCACTGCCTTGCAGTTGCTCTGCCTGGCCCTGCTTTGGGCAGTCATGTCCACAGCCGCTTCCCTGGCCTTCCCCTTCATCCTCATCCTCACAGTGCCTTTGCGCATGGTGGTACTTACCCGAATCTTCACTGAGCGAGAAATGAAATGT
Seq A exon
GTAAGCACCCCTCACCCTCTTCTCTTTTCCTTCCAGTCCTCTCTCCCATGATTCCATAAAGGTCAACCCTTCCCTCCTTTCTGTCTCCTCACAG
Seq C2 exon
CTGGATGCTAATGAGGCAGAGCCAGTGTTTGACGAGTGTGAAGGTGTGGATGAGTACAACGAGATGCCCATGCCTGTGTAGCTGCTGTCCAGAGGCACAGCAGAGGGACTGAGGGGCAGGGGGCCCATGCCTGTGTAACTGCTGTCCAGAGGCACAGCAGAGGGACTAAGGGGTGAGGGCTGGGGGTCCTCTCCTCCTGCCCCTCCTCATTTTTATTTAAGTGAATAATTTAAAGCCCCCTTCTCCCTATCCTGCAGTAAAGTGCTTCAACCCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028962-Slc4a2:NM_009207:22
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=PD(2.2=19.0)
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:
GATGCACCTGTTCACTGCCTT
R:
GGCTCTGCCTCATTAGCATCC
Band lengths:
183-277
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: