MmuINT0147207 @ mm9
Intron Retention
Gene
ENSMUSG00000068323 | Slc4a5
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 5 [Source:MGI Symbol;Acc:MGI:2443220]
Coordinates
chr6:83222039-83223315:+
Coord C1 exon
chr6:83222039-83222172
Coord A exon
chr6:83222173-83223043
Coord C2 exon
chr6:83223044-83223315
Length
871 bp
Sequences
Splice sites
5' ss Seq
CAAGTAGGT
5' ss Score
7.33
3' ss Seq
CACTTCCCTCTGCCACCCAGGGC
3' ss Score
6.05
Exon sequences
Seq C1 exon
GGAGTAATGGAGAGCTTCCTGGGCACTGCCATGGCTGGCAGCTTGTTCTGCCTCTTCTCGGGGCAGCCTCTTATCATCCTCAGCAGCACAGGACCCATCCTCATCTTTGAGAAGCTCCTCTTTGACTTCAGCAA
Seq A exon
GTAGGTACCACATGGCGGCCTCCATGCCTACTCCTGCATCTGAGGCACTCAACGAAGGCAAGGGTGGAAGGATAGACCCATGCTGGGTGGGGTCCTGGGGGGGGTAGAAGGGAGGGGACCTGTGAGGAGACCCCACAGGCATGGTGAACTGTGGGTGTTGGGTGGTTCTTCCTGACTCCTGTAAGCTGCCTGCCTTGAAGTCTTCTGAGTGCAAATTAGCACATAACGTGCACATGGGGAGCAAGCCAAGCCGCGTCATTCTCACTGGGAAGTCTGTGGTGTACAGGAAGAGCCTGGGATGGAGCTCACAAGGCCACGGTTATCTCCCAGCCTCGCACACTCATTTGCCTTGTGGGTCTGGGATGGACCAGTCCCAAGGCTGCTCCAGCGTATTCAGCTCAGATTATCTACTGATTGCTTCCTGACAGTGAGGTGCTTTCCTAGGATTCCCAAAGACCTGACGCACCAGAGCTGGGGAGGTGGCTCAGTCAGTCAGGTGTTTGCCCCGTGAGCCTGATGACCCGAGTTCAGTGCCCATAACTCACCCATAGGTAGAATCAGGGTGGCTCATGCTTATGGTCCTGGTGCTTGGGAGGTGGAGGTGGGTGGATCCCTAGCCTACCTGGAGGATTCTACACATGGGTGCCAACATATATGCAAACCCACAAATACACGCATGCACACACACACACACACACACACACACACACACACACACACACACACACAAATAGATTAGAAAACCCAGCCCAGGAATTGTCCTTGTCCTGTCCTTTGGCAGGCATCTGTGCTACAAAGGGGGGTATGAGCCCCTCAGGGTGGGCCCTGGGAGCCAAGCCCAGAGGGTCCCTCACTTCCCTCTGCCACCCAG
Seq C2 exon
GGCCAATGGCCTGGACTACATGGAGTTCCGCCTCTGGATTGGTCTTCACTCAGCCATCCAGTGCCTTATTCTGGTGGCCACAGATGCCAGCTTTATCATCAAGTATATCACCCGCTTCACCGAAGAGGGCTTCTCCACCCTCATCAGCTTCATCTTCATCTACGACGCCATCAAAAAGATGATTGGTGCCTTCAAATACTATCCCATTAACACGGACTTCAAGCCTGACTTCATCACCACCTACAAATGCGAGTGCGTCGCTCCTGACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000068323-Slc4a5:NM_001166067:12
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=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=FE(8.4=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(17.5=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:
GCTTGTTCTGCCTCTTCTCGG
R:
GCACTCGCATTTGTAGGTGGT
Band lengths:
350-1221
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: