MmuINT0032025 @ mm10
Intron Retention
Gene
ENSMUSG00000025461 | Cd163l1
Description
CD163 molecule-like 1 [Source:MGI Symbol;Acc:MGI:2443796]
Coordinates
chr7:140228362-140228818:+
Coord C1 exon
chr7:140228362-140228430
Coord A exon
chr7:140228431-140228503
Coord C2 exon
chr7:140228504-140228818
Length
73 bp
Sequences
Splice sites
5' ss Seq
TAGGTATGC
5' ss Score
7.53
3' ss Seq
GACCTCTGCTTCCTTTCCAGAGA
3' ss Score
9.52
Exon sequences
Seq C1 exon
GAACACCACAGATAGCTCTCCAGGACCCTGCACAGACCCCAAACTGCTCTTCTCCATTTGGCTGCCTAG
Seq A exon
GTATGCAGCTACAAGCCTCCTGCCTACCTGCCCATTCAGAGGGGCACCACAGTGACCTCTGCTTCCTTTCCAG
Seq C2 exon
AGAACAGTGTTCTGCGTGTGCTTGGGGGTGAGGATGGCTGTTCCGGGCGTGTGGAGCTCTGGCACGCAGGCTCATGGGGCACAGTGTGTGACGACTCCTGGGACCTGGTGGATGCCGAGGTTGTGTGCCGGCAACTGGGCTGCGGCCAGGCCTTGGCTGCTTTAGGAGAGGCTTCCTTTGGCCCTGGTGTGGGGCCTGTGTGGCTGGATGAGGTCGAGTGCCTTGGCAGTGAGGTGACCCTGGAGGCCTGCCAGGCTGAGCCCTGGGGACATGGAGACTGCACGCACAAGGAGGATGCAGGTGTTCGCTGTGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025461:ENSMUST00000209637:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0053013=SRCR=WD(100=92.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACCACAGATAGCTCTCCAGGA
R:
CCAGGAGTCGTCACACACTGT
Band lengths:
167-240
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