MmuINT0032020 @ mm10
Intron Retention
Gene
ENSMUSG00000025461 | Cd163l1
Description
CD163 molecule-like 1 [Source:MGI Symbol;Acc:MGI:2443796]
Coordinates
chr7:140223216-140224196:+
Coord C1 exon
chr7:140223216-140223524
Coord A exon
chr7:140223525-140223890
Coord C2 exon
chr7:140223891-140224196
Length
366 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TGACATGGCCTTTTCTGCAGAGT
3' ss Score
7.63
Exon sequences
Seq C1 exon
GACACGTGGAGGCCCGGCTAGTGGGTGGAGAACATTCCTGTGCTGGACGCCTGGAGGTTCTTCGGGGACTGACCTGGGGTACCATCTGCCATGCTGATCTGGACTTGCCCACAGCCCATGTGGTGTGCCGGGAGTTAGGGTGTGGTATAGCTGTGTCTACACTTGGGGGTGCTCAGTTTGGCCAGGGCTCAGGACCTGTGTGGCTAGAAGCCTTCCGCTGTGTGGGGAATGAATCGCTGCTATTCCACTGCCCCCGGGAGCCCGGTCACCACTGTGGCCACGAGCAGGATGCTGCACTCACCTGCTCAG
Seq A exon
GTGAGTACCGTGCAGCGTCTGCAGGCAAAGTCCTTGCCTGTTTTGAATACCTCCTTCTATGGCCCACATTAGATGGTTTAAGCAGTGCCCATAGGGGCCAGGAAAATGACCATATTCCTGATAAACTTGATTATGCTGGTGCAGGTAGGAGAAAAGGGATGGACAGGATGCAGATTGCACAGGGATTTGTAGCCTGCTTTGGCTCCTCTGTGGTCGGGCAGAAGCAGGCTGTTGATAATCAGGTGGGTGAGGAGCTGCAGGAAGAAGGGCTTTATCATGTTACACACAGAAGAAAACTAGCCACAGAAGTAGAGTTATGAACTGGGCCTCTGGGATGGGGCAGTTTTGACATGGCCTTTTCTGCAG
Seq C2 exon
AGTTCCGGCTGGTCAATGGCAGCAGTGACTGTGAAGGCCGTGTGGAACTCCAAGTGCAAGGGACCTGGGCACCTGTCTGTGCTGCCAACTGGGACCTAGCAGATGCCATGGTTCTCTGTCACCAACTCAACTGTGGCAATGCAGTATCTGTACCTCCAGGAGGACATTTTGGTGATGGGGATGATCTCATCTGGCCAGACATATTTCATTGTGTGGGGACAGAGCCTCATTTGCTTCACTGTGCAGCAAGCACCCTGGGGGCCCATGGTTGTGTCCTGGGGAATACAGCTTCTACCATCTGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025461:ENSMUST00000209637:4
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=92.3)
A:
NA
C2:
PF0053013=SRCR=WD(100=95.1)
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:
CTCAGGACCTGTGTGGCTAGA
R:
CAAATGAGGCTCTGTCCCCAC
Band lengths:
355-721
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