MmuINT0032001 @ mm10
Intron Retention
Gene
ENSMUSG00000008845 | Cd163
Description
CD163 antigen [Source:MGI Symbol;Acc:MGI:2135946]
Coordinates
chr6:124325261-124326145:+
Coord C1 exon
chr6:124325261-124325572
Coord A exon
chr6:124325573-124326115
Coord C2 exon
chr6:124326116-124326145
Length
543 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
TTTTTCTCTTTTTCCTGTAGAAA
3' ss Score
11.91
Exon sequences
Seq C1 exon
ACAAAATAAGACTCCAGGAAGGGCATACAGACTGTTCTGGACGTGTGGAGATCTGGCACAAAGGTTCCTGGGGAACAGTGTGTGATGACTCCTGGGATCTTAATGATGCTAAGGTTGTATGTAAGCAGTTGGGCTGTGGCCAAGCTGTGAAGGCACTAAAAGAAGCAGCATTTGGTCCAGGAACTGGGCCCATATGGCTCAATGAAATTAAGTGTAGAGGGAATGAGTCTTCCCTGTGGGATTGTCCTGCCAAACCGTGGAGTCACAGCGACTGTGGGCACAAAGAAGATGCTTCCATCCAGTGCCTCCCAA
Seq A exon
GTAAGTGTCAACAACCTGGATTGAGCTGGACTCTTTAGTAGCAAAGGCGGGATTTAAAGTGTGATGTTTGAATGGTTGGTCTGGCAACAAGGGGGTCTGATGGGAGGACAATTGTGATGTTTCTATCTGAAGCGGCGGTTCCCAACCTTCCTGGTGCTCAACCCTTTAATGCAGCTCCTCATGTTGTGGTGACTGTCCCCGAACCATAGAATTATTTTGTTGCTGCTTCATAGCTGTAGTTTGATACTGTTGTGAATTGCTATGTATCTGATATGCAGGATATCTAATATGAGACCCCTAGATTGAAAACCATTGATCTAAAGGAATGGTGAAAAAACATTTACTGCTACACAGTGGCTGTCACGGAAGACAGGCATATAATCTATGTATCTGTGTGCAGGTGAGATCCTGGGAGAGGCAAGCTTTAGGTGGGAAAGTGAGGTTTGCTTGCTTAAGCAGCAGTGAAGGCTCATGCAAGGAGATATTGATATTTGCTTCATTCATGGCCCCCCAGAATTAAGTATTTTTCTCTTTTTCCTGTAG
Seq C2 exon
AAATGACTTCAGAATCACATCATGGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000008845:ENSMUST00000032234:12
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=93.3)
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:
ACAAAATAAGACTCCAGGAAGGGC
R:
CTGTGCCATGATGTGATTCTGA
Band lengths:
342-885
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