MmuINT0147221 @ mm10
Intron Retention
Gene
ENSMUSG00000068323 | Slc4a5
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 5 [Source:MGI Symbol;Acc:MGI:2443220]
Coordinates
chr6:83260435-83261563:+
Coord C1 exon
chr6:83260435-83260595
Coord A exon
chr6:83260596-83261410
Coord C2 exon
chr6:83261411-83261563
Length
815 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGT
5' ss Score
8.83
3' ss Seq
CTTGTTTGTTTCTCATCCAGATG
3' ss Score
9.61
Exon sequences
Seq C1 exon
GTGGATAAAATTTGAAGAAAAGGTAGAGGAAGGAGGAGAACGATGGAGCAAGCCCCATGTGTCCACGCTGTCCCTGCACAGTCTCTTTGAGCTCCGCACCTGCCTGCAGACAGGGACAGTGCTACTGGATCTGGACAGCTGCTCCCTACCACAGATCATAG
Seq A exon
GTGAGTCCAGGACATCTCTGCTGTGGTCCCGGTAAACCAGGGCAATTCTTCTAACCCCGTGTCAACCTGCAATTCTGTATGACTGGCCATCTCAACACTTGCCTGATTCTGCAGGATTTTGATTCTGGCACCGTCTAGGCAGTGTCCAATTGCTTTTAATATACACAGTATGCAGACCACCAACAGCTAGCAAAAGAGCATCCCTGAAATGTGGCTCAGCAAGGCAGTAGCCAGGGAGAGGGGCTCCTGGGATGGATGGGCAGAGATGAGTGTTGCCATGGCAATGTGTTTCTTTTCAAAGGAAAATGGACTGTCTTTCTTCTTTTGAAAACTAGCTCTATTCTCCCCCCCCCCCCCCAAAAAGAAAGAAAGCTAGCTCCCACTTAATGGGGTGTCAAACGAGAAGGTGGCTTGTCTCCTTTTTCCTCCCTAAACATCCCTGTGAGTTTTATTCTACTTAGTAAATTTAGTTTGGCTGTAACTATTTCTTCTCTAAAAAAGAGTTCATTTTGGGGATGGAAATCACTGTCTATTTTCATAGGTCCTCTTTAAAGCATGTTTCACAACGGGGATAAAAGGAGCAGAGACTTCTGTCCACACATGCACATACCTGGAGACAGATACAGAACCTTATACCTGATGATATCGGGGTTGACAGTCCTGAAAGTCAATGGCAGAGCCTCCGCAGGACTATTCTCAAATCCCTGACCTCTTTACTCAGTCTCAATTCCACGAATAGCCCAGAAGAAGCAAGACCTCAAAGCCTTGGTCTTTTTCTCTCCCACATGGGTCCAACTTGTTTGTTTCTCATCCAG
Seq C2 exon
ATGATGTCATTGAGAAGCAGATAGAGGATGGACTTCTGCGACCTGAGCTCCGGGAGAGGGTCAGCTACGTGCTCCTGAGGAAGCATCGTCACCAAACCAAGAAGCCCATCCACCGTTCCCTTGCAGACATCGGGAAGTCGGTTTCCACGACGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000068323:ENSMUST00000113899:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.073 A=NA C2=0.308
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PU(17.5=85.5)
A:
NA
C2:
PF075658=Band_3_cyto=FE(19.0=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:
TGAAGAAAAGGTAGAGGAAGGAGGA
R:
TCGTCGTGGAAACCGACTTCC
Band lengths:
302-1117
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types