HsaINT0030814 @ hg19
Intron Retention
Gene
ENSG00000177575 | CD163
Description
CD163 molecule [Source:HGNC Symbol;Acc:1631]
Coordinates
chr12:7639095-7639582:-
Coord C1 exon
chr12:7639490-7639582
Coord A exon
chr12:7639410-7639489
Coord C2 exon
chr12:7639095-7639409
Length
80 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGA
5' ss Score
9.14
3' ss Seq
AGTTTCATTTCTCTTTGCAGAGA
3' ss Score
9.54
Exon sequences
Seq C1 exon
GAAACCAGTCCCAAACACTGTCCTCGTGCAATTCATCGTCTTTGGGCCCAACAAGGCCTACCATTCCAGAAGAAAGTGCTGTGGCCTGCATAG
Seq A exon
GTAAGACTCTGTGACAAATCTATGAAAATATTAATAACAAGTGGAATGCTCATTATTAATAGTTTCATTTCTCTTTGCAG
Seq C2 exon
AGAGTGGTCAACTTCGCCTGGTAAATGGAGGAGGTCGCTGTGCTGGGAGAGTAGAGATCTATCATGAGGGCTCCTGGGGCACCATCTGTGATGACAGCTGGGACCTGAGTGATGCCCACGTGGTTTGCAGACAGCTGGGCTGTGGAGAGGCCATTAATGCCACTGGTTCTGCTCATTTTGGGGAAGGAACAGGGCCCATCTGGCTGGATGAGATGAAATGCAATGGAAAAGAATCCCGCATTTGGCAGTGCCATTCACACGGCTGGGGGCAGCAAAATTGCAGGCACAAGGAGGATGCGGGAGTTATCTGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000177575-CD163:NM_203416:9
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:
NO
A:
NA
C2:
PF0053013=SRCR=WD(100=92.5)
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:
CAGTCCCAAACACTGTCCTCG
R:
CCCCAGGAGCCCTCATGATAG
Band lengths:
167-247
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)