MmuINT0147217 @ mm9
Intron Retention
Gene
ENSMUSG00000068323 | Slc4a5
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 5 [Source:MGI Symbol;Acc:MGI:2443220]
Coordinates
chr6:83246566-83247377:+
Coord C1 exon
chr6:83246566-83246739
Coord A exon
chr6:83246740-83247212
Coord C2 exon
chr6:83247213-83247377
Length
473 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGG
5' ss Score
7.61
3' ss Seq
CCCCCTTCTTCCCATCCCAGATC
3' ss Score
10.8
Exon sequences
Seq C1 exon
TTCTGGGAACGCTGTAAGCTTTTCCTCATGCCAGCCAAGCACCAGCCGGACCACGCTTTCCTGCGCCACGTGCCCCTTCGCCGCATTCACCTGTTCACCCTGGTGCAGATCCTCTGCCTGGCCCTGCTCTGGATCCTTAAGTCAACCATGGCTGCCATCATCTTCCCGGTCATG
Seq A exon
GTGAGGAGGGTGCAGCGGGCAGGGCATTGCAGCATTCAGAGAACAGCGCCATAGAAACAGGACCCTGCAGAGAAACCCAGATGCTGAGGTCAGGGCAAAAGTCAGCCAGCTTCCCATGATGGGCAGGTGGTATGGTGGAGGGGTGGAGCAGGATCAAAGATGCCGAACAAAACAGAAAGGCAAAGCTCCCAGGGCTGAATTCCAAGCTGGTCTTGGAAATAGAAAAACACATGCATTGAGATGTTAAATGGATCATGAGGGAGCAGAGTCTGTGCTCAAAGATTCAAGTACTAGGGGTGCTGCAATCTTCTGGGCTTGCTGGCTAGTTAGTTTTGGGGACATTGGAATGGCTGCAAAGAGCTGGTCACACACACATGGTCCCTGACCTCAGCCAACTGGGGAGAAAACACAAGCTCACCGTTGCCTTTGAGCTCCCACGGAGCCTCAGCCTTTCCCCCTTCTTCCCATCCCAG
Seq C2 exon
ATCCTGGGCCTTATCATTGTTCGAAGGCTCCTGGACTTGATTTTCTCCCAGCATGACCTGGCCTGGATTGACAATATCCTCCCAGAGAAGGACAAAAAGGAGACAGACAAGAAGAAGAAGAGAAGGAAAGAGGTCCATGAGACGGCAGAGAAGGAGGTGGCAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000068323-Slc4a5:NM_001166067:21
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.286
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=PD(6.5=58.6)
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:
TCTGGGAACGCTGTAAGCTTT
R:
CATTGCCACCTCCTTCTCTGC
Band lengths:
338-811
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: