MmuINT0147177 @ mm10
Intron Retention
Gene
ENSMUSG00000006576 | Slc4a3
Description
solute carrier family 4 (anion exchanger), member 3 [Source:MGI Symbol;Acc:MGI:109350]
Coordinates
chr1:75550755-75551382:+
Coord C1 exon
chr1:75550755-75550935
Coord A exon
chr1:75550936-75551246
Coord C2 exon
chr1:75551247-75551382
Length
311 bp
Sequences
Splice sites
5' ss Seq
AGGGTAGGG
5' ss Score
5.76
3' ss Seq
CTTCCCTCACTGTGTCCTAGGAG
3' ss Score
8.74
Exon sequences
Seq C1 exon
GTGTTCGTGGAGCTGAATGAGCTGATGTTGGACCGGAGCCAGGAGCCACACTGGCGGGAGACAGCACGCTGGATCAAGTTCGAGGAGGATGTGGAGGAGGAGACGGAGCGCTGGGGGAAGCCTCACGTTGCTTCGCTCTCCTTCCGTAGCCTGCTGGAACTTAGGAGGACCATTGCCCAGG
Seq A exon
GTAGGGCTCCTTGGGCTGGCAACTTCTCCCTGCTGTAGCGCCATCTGTGTTGGGCTGCCCAGTGAGTTGAGACCACTCTGGGAATTCCGAGGGGCAGGACTATGCATTGCACCTGCACTCTTAGGCCGTGACTCACTCCCATTGCTTGGCCCCCATTGTCATATGCATCCCCAGATGCCTGTAAGACGTGTATCTGCTGTTAGTGCATTGGCCCTCAGCTCAGTTTGCACATTTGCCTGCCTTTGGGCAGCAAGGCAGTGGGGGGTGGTCTCCCCTCTGGCCGGGCGGCTCCTTCCCTCACTGTGTCCTAG
Seq C2 exon
GAGCGGCTCTCCTGGACCTGGAACAGACCACCCTGCCGGGTATCGCTCACCTTGTGGTGGAGACCATGATTGTATCTGACCAGATCCGGCCTGAGGACAGGGCTAGTGTTCTGAGGACTCTACTCCTGAAACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006576:ENSMUST00000124341:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.057 A=NA C2=0.148
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PU(20.4=50.8)
A:
NA
C2:
PF075658=Band_3_cyto=PD(57.9=95.7)
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:
GTGTTCGTGGAGCTGAATGAG
R:
TCAGGAGTAGAGTCCTCAGAACAC
Band lengths:
310-621
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