MmuINT0147068 @ mm10
Intron Retention
Gene
ENSMUSG00000006574 | Slc4a1
Description
solute carrier family 4 (anion exchanger), member 1 [Source:MGI Symbol;Acc:MGI:109393]
Coordinates
chr11:102351102-102351526:-
Coord C1 exon
chr11:102351357-102351526
Coord A exon
chr11:102351276-102351356
Coord C2 exon
chr11:102351102-102351275
Length
81 bp
Sequences
Splice sites
5' ss Seq
AGGGTATTT
5' ss Score
4.53
3' ss Seq
TGACCCTGGCTTCCCCACAGGTG
3' ss Score
11.41
Exon sequences
Seq C1 exon
GACTGTCCATCCTCATGGAACCTATCCTGTCCCGCATCCCCCTGGCTGTGCTCTTCGGCATCTTCCTGTACATGGGAGTCACATCCCTCAGTGGCATCCAGCTCTTTGACCGCATCTTGCTCCTGTTCAAGCCACCCAAGTACCACCCGGATGTGCCCTTTGTCAAGAGG
Seq A exon
GTATTTAGCTTGGTGGCTGTCCAGCTAGGGTGGGGGAAGGGTGTCAGAACAGGGCAGACGCTGACCCTGGCTTCCCCACAG
Seq C2 exon
GTGAAGACCTGGCGCATGCACCTCTTCACGGGCATCCAGATCATCTGCCTGGCTGTGCTGTGGGTGGTGAAGTCCACTCCTGCCTCGCTGGCCTTGCCCTTCGTCCTCATCCTCACAGTGCCTCTCCGTCGTCTCATCCTCCCGCTCATCTTCAGAGAGCTGGAACTCCAGTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006574:ENSMUST00000006749:18
Average complexity
IR
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=FE(19.6=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=PD(3.8=19.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGATGTGCCCTTTGTCAAGA
R:
CTCTGAAGATGAGCGGGAGGA
Band lengths:
180-261
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