MmuINT0147224 @ mm9
Intron Retention
Gene
ENSMUSG00000068323 | Slc4a5
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 5 [Source:MGI Symbol;Acc:MGI:2443220]
Coordinates
chr6:83213510-83214414:+
Coord C1 exon
chr6:83213510-83213565
Coord A exon
chr6:83213566-83214256
Coord C2 exon
chr6:83214257-83214414
Length
691 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
TCATTTTCCTCCCGGAGCAGCGG
3' ss Score
4.6
Exon sequences
Seq C1 exon
GTCATGCCCAGAGTAGAAGCATGAATGACATCTCTCATACCCCAAACACAGACCAG
Seq A exon
GTAGGAGAGCTCTGCCCTGGACTGCAGAGGCAGGCCGGGAAGGAGGAGGAAGCCTTTGGTTTCACGGGCAGAGAGCCCTTGACAACCTCTCTCCCACAAGGGAACAGAAGCCCCCCAAGACTAAGAACTTATAAGTAACCTTCCCTAGGACATTTTCATCGTCAGACAACTCTGGAGATGTGAAGTCATAAAGACAGAGGGTGGAGTAGTTTGAGCAGAGGACTTGTCTGGTACACTAGAACCAGTCACTCCAACTGTCTGACCTTCTTGCCCTGGACAACTGGTAGCCAGTGGCACTGGAGTGGAAACCCACTCATGGTCTCAGTTTAAAAGACTAAAGATTATAAGTTCCCAGGAAGTCTCCTTGGGGCACCCTTGGAGACTGGTCCAGAGATTCCCATGAGTGAGGAGGCAGGGCAGAGGGCAAACAGACAGGCTTCTCTCCACTGCCACAGGAGAAGGCCTGGAGGGAGGGCTGGGTGGCTTACCACTAAGCCTAAGGGCTACATCTGTTCCAACAAGGAGGCTGCAGGTGAGAGCTAGGTTCAGCAAGCCCAGGCTAGGCTCTTCTCTGACTGCTTGGTTCACACAACTCCTGGGGAGATTTTAAAGCTAGACCTCCATTGTTCTCTGAAGTGAGACTATGAGCATGCCAGGTCTTCTTGGGTGTGTCATTTTCCTCCCGGAGCAG
Seq C2 exon
CGGAAAAACAAATTCATGAAGAAGATTCCCAAGGACTCAGAAGCTTCCAACGTGCTCGTGGGCGAGGTGGACTTCCTGGACCAGCCATTCATTGCATTTGTTCGTCTTGTCCAGTCTGCCATGCTGGGAGGGGTGACAGAGGTGCCTGTCCCCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000068323-Slc4a5:NM_001166067:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.789 A=NA C2=0.151
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(6.7=100)
A:
NA
C2:
PF075658=Band_3_cyto=FE(19.4=100)
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:
GTCATGCCCAGAGTAGAAGCA
R:
CTGGTGGGGACAGGCACC
Band lengths:
214-905
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: