MmuINT0032004 @ mm9
Intron Retention
Gene
ENSMUSG00000008845 | Cd163
Description
CD163 antigen [Source:MGI Symbol;Acc:MGI:2135946]
Coordinates
chr6:124277916-124279115:+
Coord C1 exon
chr6:124277916-124278005
Coord A exon
chr6:124278006-124278979
Coord C2 exon
chr6:124278980-124279115
Length
974 bp
Sequences
Splice sites
5' ss Seq
CGGGTCAGT
5' ss Score
6.55
3' ss Seq
AATTACCTTCTTCCTTCCAGAAA
3' ss Score
8.94
Exon sequences
Seq C1 exon
TTTCCTCAAGAGGAGAGGTCTTGATACATCAAGTTCAGTACCAAGAGATGGATTCAAAGGCGGATGATCTGGACTTGCTGAAATCCTCGG
Seq A exon
GTCAGTGAACTGTATAAAAGTCTAAAGCTTGGAGTTTAGCAAGTGCCTGCAATTGAGGCTGAGCATCCTACTTCGATTAATAGTTGAAAAAGTTCTAAAACCTTGTAATGGGACATTTGTGGTGCATAGGAAGAAAAACAAAAGGAAGGGCGGGATAAATGTCTCACAACCAAAAACGTCAAGAAAGGCAGCCATGAGCTGTAAATTATTTTTAGAGGACGTAAATTGTGACCACAAGGAATTCTATCTAGCCTAAGATGCCGATCACTGAGAGGGGTGCACCAACATACTATGACTTGGACCTCATTTTGCTGAAACAGAAATCCGTTTTCTAAAAGGCTGTTACAAAGACTGTTTAAATTTTCTTTTCTTTCTCTTTTTAAAAATAATTTGGATGTGTATACTTAAGGCCTGCAACATGATGGTATGGAGAACATAGAGGCGCTATAAAAATTACTAAACCAAAGCAAGAGAGCATTTCCACAGTCTCCTAGGAATCTGGCACAGTGTTATCTCCACTGCGCATGTGTTCCACAGGAGTGCCTACACCCACTCTCAAGTGCTCATTTTCTTAGCATCCTCCCACCTGAGTCTTTTCCTTCAAGAATCCACTCCCACTCCCTGTTACATCTGTCCTTGAATTTGATTTTAAAGTTTAAAAGTTCAAGCTTTCCATATTCCATCCAATGAGACACCATAGCTGTCCCCAGAACCAACCTTAGCTTTCATTCCAGGAGAAGTGCCCTAGTATTCATTGTCCTCACTCCTCGGGAACCTTCTGAGAGGGATTTGCCTTGGTTCTTCAGTCTGTTGCTGCTGCTATGTCAGATGTGTATTTAAGGAACAGGAATGGTGTTGGGCCTGTCAGCTCACACATTTTGGATGCCTGATTATGGGCAGTCTCTTAAAGAGCTTCTCAGAGACTTGAGGCCAGGGCTGGCATATATTCCCAGTAATTACCTTCTTCCTTCCAG
Seq C2 exon
AAAATTCCAACAATTCATATGATTTTAATGATGATGGACTGACATCTTTGTCTAAATATCTTCCTATTTCTGGAATTAAAAAGGGGTCATTCAGAGGCACACTGAGAAGGAAAATGATAATTTATAATCCACTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000008845-Cd163:NM_001170395:15
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.032 A=NA C2=0.046
Domain overlap (PFAM):
C1:
PF063657=CD34_antigen=FE(31.2=100)
A:
NA
C2:
PF063657=CD34_antigen=PD(4.4=8.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGGAGAGGTCTTGATACATCA
R:
TCATTTTCCTTCTCAGTGTGCCT
Band lengths:
199-1173
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: