MmuINT0032024 @ mm10
Intron Retention
Gene
ENSMUSG00000025461 | Cd163l1
Description
CD163 molecule-like 1 [Source:MGI Symbol;Acc:MGI:2443796]
Coordinates
chr7:140227857-140228430:+
Coord C1 exon
chr7:140227857-140228174
Coord A exon
chr7:140228175-140228361
Coord C2 exon
chr7:140228362-140228430
Length
187 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
ATTTTTATTTTTTTTTATAGGAA
3' ss Score
10.84
Exon sequences
Seq C1 exon
AATCTGTGGCTCTGAGGCTTCGAGGTGGCACTAGTGGCTGCGTTGGATGGCTGGACGTGCTCTACAATGGGTCCTGGGGTGCTGTGTGCAGCAATGCACTCAGAGACATCTCCTTGAGCATCATCTGCAGACAGCTGGGATGTGGGGACCAGGGCTGGCTGGAGAACAGGCCTTCTTCTGGAGCTGGCCTGGGAATCTCCTGGGTGGATAATATCAAGTGTCGAAATCTACACAATGCCACCCTGTGGCAATGCCCTTCTGCCCCATGGAACCCGCACTCCTGCACCCAGGAGGAGGAGGTCTGGATTAACTGTGAAG
Seq A exon
GTGGGTGCTGAAAGACCAAGGGTGGACCCCAGTAAAAGTTTCTATGTTCTGACAAGCCACCAAAAGCACCTGCCACTGAACTTCATGGCTGGAGGCCACCAATATGTCACCATTTCCATCTCAAGCACCACAGGGCATTTAACACCAATGGCTGTGTTTTATTTTTTATTTTTATTTTTTTTTATAG
Seq C2 exon
GAACACCACAGATAGCTCTCCAGGACCCTGCACAGACCCCAAACTGCTCTTCTCCATTTGGCTGCCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025461:ENSMUST00000209637:8
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:
PF0053013=SRCR=WD(100=92.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATCTGCAGACAGCTGGGATG
R:
TGGAGAAGAGCAGTTTGGGGT
Band lengths:
253-440
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