MmuINT0032006 @ mm9
Intron Retention
Gene
ENSMUSG00000008845 | Cd163
Description
CD163 antigen [Source:MGI Symbol;Acc:MGI:2135946]
Coordinates
chr6:124257019-124259285:+
Coord C1 exon
chr6:124257019-124257339
Coord A exon
chr6:124257340-124258961
Coord C2 exon
chr6:124258962-124259285
Length
1622 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
AATCTTGATCTCTTCTCTAGATG
3' ss Score
8.55
Exon sequences
Seq C1 exon
GAGAAATGAAGAAGGAACTGAGACTGGCGGGTGGTGAAAACAACTGTAGTGGGAGAGTGGAACTTAAGATCCATGACAAGTGGGGCACAGTGTGCAGTAACGGCTGGAGCATGAATGAAGTGTCCGTGGTTTGCCAGCAGCTGGGATGCCCAACTTCTATTAAAGCCCTTGGATGGGCTAACTCCAGCGCCGGCTCTGGATATATCTGGATGGACAAAGTTTCTTGTACAGGGAATGAGTCAGCTCTTTGGGACTGCAAACATGATGGGTGGGGAAAGCATAACTGTACCCATGAAAAAGATGCTGGAGTGACCTGCTCAG
Seq A exon
GTAAGGCTTGCCTGCATCAAGCAAACCCCATGCACGTATTTCTAATTCAGCTCACAGTGTCTCTTGGATTCAACATTCCATTGCATTCTAGCACAGTCATTCACTGATGCTAAAACTTCATGCAAATTATTTAATCTTCCTAAGCTTCTGGTAACTCAATAATAAGACACATGTCAAGCTCTCTTCACACTGCCTGGTGTATAACAGTGCTGAAAATATTAGCTTCTTCACAGACTCCATCTTTTATTACCATGTGGACTCTGACATCTTCATCTCTTTCTCTTTGTTTATTTGATTATTAATCTTTACAATGAGGTAACAAATGTAGCATTGATAACTACAAGAAATCTTTCCAGTTATTACCTGTAAATAGGGCTGATATTCAGCTACAGCCAAAGTGTGATGCCCCGTGCTCTTATTTTCTTACATAATGAAGAGCGAAGTTAAACTTACTTTTTGAAGTTTATAAACTTGAAGATTCAACCAGAACCTGATAAGAGAAAAAGAGCCAATAGCTACTAGAGGAAGGCTGGTTTCATAGGAATCTGATGTCTCTATTTGTGAGATCCTTTACCGTAACTCCTGCTTAGTCTTCAGAGAGTCCACCTCTTAGCACACTAATCAACAGAAAAGTGATGCTGGGCCACTGTCCCTACCTCTCCACCACTCATGTCTTAGCTTTGCTGTCTCTCTAGGTGCTCAATGCTACACCCAGTGAGTGAGCCTCAGGTGGTTGATCTGTGAAATGGACTAACAATAATAGCATATAGTGTTTAAACTTGTAAAGATTGAATAATACGGCATGTGATGCACTTATATGTACACTGATTGTGACCTCTTATGATTATCAATTATTATGGCTAATTACCTACGATGAAAACAAGCCTTGCTAAGTTGTGGTCTTTCATTGGAGTTTGGAGCTCATAAAATTTAATCTCTTGCTCAAGAAAGTGCTTCTAAAATTTTGTCCAGCTCCACCACCTCCAGTGTGCCCATATAGCAACCAAAGTCTCCTTTCTTCATGTATTTTACTCCTCATAGAAACTCGTGGCACTGTAAAAAGTAAGAAAAAAAAACTCCACTTTTGCTGGAAATGATAGTAAATTCCTTGGGAAGAAAACCACAATTTTTAAGACTTGATAACACATAGTGTTTTGAAGACTGTTGTGTTTATTTAGGCATTTTAATCTTTTCTTATTTTCTAATTTCAAATTCAACATCAATTACTCATCCTTAGAACTCTTTTAATATGGAGAGGTTAAAATCAGGAATCTATACTTCTGGTAAATGACTATTTTCTCATTTTTAAACAACTTGATTAAAAGGCCAATATACTTTTTCTGCTTTTTTTTAGTGAGTAATATGTCATATTGATCTTTTCTATAGTAAAGAGTGTTCTGATCAATAATACAATTTGCTTAGAAAGCAGATGTAGAGGGAAATCCTTATTGCTCATTGGGTTTTAACATGGTAAAATTCTCTGCTATGTGGAGATGGGCCATATTTAAAAGCCAAACACTAATTTTTAAATTCCAAGCACCAAATTCCAAGTATCCAGAAAACCCTAAACGATTGGCTGCTTATGAATGAATTTCACTTCCTAATCTTGATCTCTTCTCTAG
Seq C2 exon
ATGGATCTAATTTGGAGATGAGACTGGTGAACAGTGCGGGCCACCGATGCTTAGGAAGAGTAGAAATAAAGTTCCAGGGAAAGTGGGGGACGGTGTGTGACGACAACTTCAGCAAAGATCACGCTTCTGTGATTTGTAAACAGCTTGGATGTGGAAGTGCCATTAGTTTCTCTGGCTCAGCTAAATTGGGAGCTGGTTCTGGACCAATCTGGCTCGATGACCTGGCATGCAATGGAAATGAGTCAGCTCTCTGGGACTGCAAACACCGGGGATGGGGCAAGCATAACTGTGACCATGCTGAGGATGTCGGTGTGATTTGCTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000008845-Cd163:NM_001170395:3
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=90.7)
A:
NA
C2:
PF0053013=SRCR=WD(100=89.0)
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:
GAGTCAGCTCTTTGGGACTGC
R:
GGTGTTTGCAGTCCCAGAGAG
Band lengths:
352-1974
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: