MmuINT0145701 @ mm10
Intron Retention
Gene
ENSMUSG00000011486 | Slc25a41
Description
solute carrier family 25, member 41 [Source:MGI Symbol;Acc:MGI:2144215]
Coordinates
chr17:57032773-57033867:-
Coord C1 exon
chr17:57033720-57033867
Coord A exon
chr17:57033184-57033719
Coord C2 exon
chr17:57032773-57033183
Length
536 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGC
5' ss Score
7.09
3' ss Seq
TTGTCTATGTCTATCCCCAGACA
3' ss Score
9.1
Exon sequences
Seq C1 exon
CTACTCCAGTGCCTGTGGCAGAAGTTGGGCAGGGACATGAAGGACCCCAGTGGCCTCGTCAGCCTGTCATCTGTAACACTGTCCACGACCTGTGGCCAGATGGCCAGTTACCCACTGACTTTGGTGCGCACAAGGATGCAGGCTCAAG
Seq A exon
GTCAGCCTGGCTCCAGGAGCCATTACACATAGCTGTTCCTTGCCTCATTCCAGCTCTCTGTATCTTTTCACCTTTCCCACCAACTTTCAGCCTCTCTATAACCCATTTAGAACACCTTTGCTAAGTACTGAACCCACCAAAGCTTATGCTCACCCCTAATCTAACCCTAGCCCTCAAGTTAACATGCCTATCACCCATCACTTGGAAAGCCAGCCTCAGCTACTTTGAGGCTGGGGCTCAAGGTACAGAGTGTGCCTTATATGCATGGGTTCAATCCCCAGTACCACATGAACTGGGTGTGATAGTGCTGTTATTCCAGTAGGAGGTACATGCAAGGGAATCAAGAGTTCAAAGCTAGCCTCAGCTACATATGGAGTTCTAGGCCAATCTGCACCATATGATACCATGTCAACATACATACATACATATATAACAATAACCAAATGATCTCTACAACATTCCCTCAGTGTGATCAGATCCTTCACAGTGAATCTCACATCATACCCAGTGCTGACCTTGTCTATGTCTATCCCCAG
Seq C2 exon
ACACTGTGGAGGGCTCCAACCCCACCATGCAGGGAGTCTTCAAGAGGATACTGAGCCAGCAGGGCTGGCCGGGGCTGTACAGAGGCATGACACCCACTTTACTGAAGGTGTTGCCAGCAGGCGGCATCAGCTACCTGGTGTATGAAGCCATGAAGAAAACCCTGGGTGTACAAGTCCTGAGCAGATGACCTGCCCTGAACAAGAAGAGAATGGAAGACCCAGTGTCCCTGAGTCTCAAAAAGCACTCCAAGGCTCAGGCTTTAAGGCCATTTTGGTTTGCAAAAACCACCCAGGACTCGGATTAGAAAAGCGCTGGGAGTCCTCCAATTGGGATTCTGAGTTGGGATTCCAGCCGGGTTTTTGCAGGCTTGTTCAAGAGAAGATGCAGACAATGAATAAAGATAGTTTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000011486:ENSMUST00000058661:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.032
Domain overlap (PFAM):
C1:
PF0015322=Mito_carr=PD(9.7=18.0),PF0015322=Mito_carr=PU(38.3=72.0)
A:
NA
C2:
PF0015322=Mito_carr=PD(60.6=90.5)
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:
TTACCCACTGACTTTGGTGCG
R:
CTAATCCGAGTCCTGGGTGGT
Band lengths:
346-882
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