MmuINT0032001 @ mm9
Intron Retention
Gene
ENSMUSG00000008845 | Cd163
Description
CD163 antigen [Source:MGI Symbol;Acc:MGI:2135946]
Coordinates
chr6:124275279-124276163:+
Coord C1 exon
chr6:124275279-124275590
Coord A exon
chr6:124275591-124276133
Coord C2 exon
chr6:124276134-124276163
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-Cd163:NM_001170395:12
Average complexity
IR-S
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),PF063657=CD34_antigen=PU(10.0=8.6)
A:
NA
C2:
PF063657=CD34_antigen=FE(10.4=100)
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:
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: