MmuINT0147165 @ mm9
Intron Retention
Gene
ENSMUSG00000006576 | Slc4a3
Description
solute carrier family 4 (anion exchanger), member 3 [Source:MGI Symbol;Acc:MGI:109350]
Coordinates
chr1:75551498-75552075:+
Coord C1 exon
chr1:75551498-75551716
Coord A exon
chr1:75551717-75551985
Coord C2 exon
chr1:75551986-75552075
Length
269 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTC
5' ss Score
7.46
3' ss Seq
AACCTGGCTGTCCTCGGCAGGCT
3' ss Score
5.92
Exon sequences
Seq C1 exon
GTGTTCACAGAGCATCCTCTGCTGCCATTCTACCCACCGGATGAGGCCCTGGAGACTGGCTTGGAACTGAATAGTAGTGCCCTGCCCCCCACAGAGGGACCACCAGGCCCGAGGAACCAACCCAACACAGCTCTGCTGTCCCTCATTCTCATGCTGGGGACGTTCCTCATTGCCTTCTTCTTGCGCAAGTTCAGGAACAGCCGCTTCCTGGGGGGCAAG
Seq A exon
GTACTCGGTTCCCCTTGACTCCTGTTGTCCCTGATAGGCTCAGGTCCCGAGAGAGTCTTCCTCCCTTCTTGGCCAATGCGGTGGCCCAACAACCCCCCTACCCCGACAAGACAAGAGTGTCTCTCAGCTGCGGCTGGCACTCAGGGGCTGGCACCTTGAGGGACACACCTTAGAGTATTTCTGGCCCTAGCTTGGTCCCAGAAAGGGTTGTGGGAGGGGGTGTCTCCTGTCCCTTAGCCCCTTGCTTCCAACCTGGCTGTCCTCGGCAG
Seq C2 exon
GCTCGGCGCATCATCGGGGATTTTGGCATTCCCATCTCCATCCTGGTGATGGTCCTTGTGGATTATTCTATCACAGACACCTACACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006576-Slc4a3:NM_009208:17
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.151 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=PD(14.8=41.1),PF0095516=HCO3_cotransp=PU(20.0=82.2)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(9.7=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:
CTCTGCTGCCATTCTACCCAC
R:
CTGTGTGTAGGTGTCTGTGAT
Band lengths:
293-562
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: