HsaINT0030809 @ hg19
Intron Retention
Gene
ENSG00000177575 | CD163
Description
CD163 molecule [Source:HGNC Symbol;Acc:1631]
Coordinates
chr12:7649409-7651784:-
Coord C1 exon
chr12:7651464-7651784
Coord A exon
chr12:7649730-7651463
Coord C2 exon
chr12:7649409-7649729
Length
1734 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGG
5' ss Score
7.66
3' ss Seq
GTTGTGTGTCTCTGTTACAGAGG
3' ss Score
9.11
Exon sequences
Seq C1 exon
ATGGATCCAATTTGGAAATGAGGCTGACGCGTGGAGGGAATATGTGTTCTGGAAGAATAGAGATCAAATTCCAAGGACGGTGGGGAACAGTGTGTGATGATAACTTCAACATAGATCATGCATCTGTCATTTGTAGACAACTTGAATGTGGAAGTGCTGTCAGTTTCTCTGGTTCATCTAATTTTGGAGAAGGCTCTGGACCAATCTGGTTTGATGATCTTATATGCAACGGAAATGAGTCAGCTCTCTGGAACTGCAAACATCAAGGATGGGGAAAGCATAACTGTGATCATGCTGAGGATGCTGGAGTGATTTGCTCAA
Seq A exon
GTAAGGACTGATCTTGGCTCATTCTATTCTCCAGGAGAGGACAAAAGAAAGGGGTAATAAATCTTAAGAGCCTGAACTCTTAAGAACATAATGAAGTCTGCTTCTTTTGTCACCGCATTTTAACCTAACTTCAGGTTCCAGTTCTGATACCTGTGGACTTTTTACCTTAACTGAAATTAGGAGAAATAGGTTAGGGAAGTGCATAGTGAAACTGAGATCCAGGTCATAAGAAAAGAAGAAAGTGTTTAGGAAAAGCCCATAAAGAAAGGGAGAGACCGAAAAGAAAAAGAGGGGAAAAAGGAAAGAAGGAAGGGCTTTACTAGGATATTTTGCACTATGAAGTTTTATGACCAAACCACTCCAGTTATCATCTAATCCACAAAAGCCTCCTCATTAGCCTCATTAACCCACTCCTTCCCAAATCATTTTTCAAGTTCACAGAATCGAATCACTTGTTAAAAATCAATATTGGTTTCTCATTAAAACTTTATTTATACTAGATATGCATTGTATCTGTCTAGAGACTTTCACGTTGTATACTCAGACTGGGGGCGGGGAAAATCGTTTGTGTGTGCAGAGATACCACTCTTCGTTTTTCTGTTGAATTCTTAGTATAAAAGGAGATTGAGTGTGTCTTGAACCCCAGAGAACACTTAGGAAAATAAGAGTAAAAAATCCCTATCTTCACCAGATCCCTTTCTCTCTCTCTCTCTCTCTCTCTGTGTGTGTGTGTGTGTGTGTGTAAATAAAGGAACTTCCATTCAAACTTGTTTAAAAAGAAGAGAATACTGGCTCACAAAACTGGGAAATCCAGAGGGTATAGTTAGCCTCATGCATGGTTGGATTCAGGTTCTTGAACAATGTCATCTGGGTTCTATCTCTTTCTGCATGTCTTGAACAAGCTTTTTCTTGTTGAACAATGTGATCAGCTATAGCCTGAACCACAATGAATGGAACTCCTACAAGAAAGATAGATTTTGTTAGGTTAAGAATGTGAAGAATTTGGAGTAGAAAAAACACAGACTGTACCTTCCATTCTCTTTTACCCATCAACATTTCTCTAGGCCCCCAGTTAGCACATGCTGACGAATCACAATCCCACAATGAATAACATTGTGGGAATGAAAACGGAAACTGCCAGAGGAAACAACCAGTTTAATTTATTACAGAATATTCTTCAGAATCAACGTCTGTTCTTTGAAGAATATTGATTTGGGGAAGGTGAAAATTGTAGTACTGAAGCCTCCTTTCTCTTTGCTCTGCTTTTAAACTAAGGAAGTGGTCACAACAGGTTCAGGTGTACAACACAGGCTAGGTAGTATCAATGGAGAATGCAGTCAGAGGCAAAAGGGATTGCTAAGTATGGAGGCAAACTGAAGGATGAGGGAGTCACCTAAACACATGCAAATATATTTTAACCAGAAAAAGTAAACAGTTCTAACAAGAACTCTGTGGTGGTCAAATAGCAGGTCTCTAGATGAAATTCAGTCCCTGTATCTCCTGTTAGAAACACTTCCTGTAGTATATGCTGTCTATACTGAGATGTCCCATCTTCTTGCCTGATCCACTCCTCCTTCCATCTTGAATGATTTCCAGTGGTAGTACAGTACATCACAGTTTTCTCTGTCTCCACTTATATCTCTCCCCTTTTCCTTAACTCATCTCAGGTATAGCTATTTATAGTCTCATGTTCTTGCTTCCTTATCGCAGACCTGTTGTGTGTCTCTGTTACAG
Seq C2 exon
AGGGAGCAGATCTGAGCCTGAGACTGGTAGATGGAGTCACTGAATGTTCAGGAAGATTAGAAGTGAGATTCCAAGGAGAATGGGGGACAATATGTGATGACGGCTGGGACAGTTACGATGCTGCTGTGGCATGCAAGCAACTGGGATGTCCAACTGCCGTCACAGCCATTGGTCGAGTTAACGCCAGTAAGGGATTTGGACACATCTGGCTTGACAGCGTTTCTTGCCAGGGACATGAACCTGCTATCTGGCAATGTAAACACCATGAATGGGGAAAGCATTATTGCAATCACAATGAAGATGCTGGCGTGACATGTTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000177575-CD163:NM_203416:4
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=90.7)
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:
CATGCTGAGGATGCTGGAGTG
R:
AACATGTCACGCCAGCATCTT
Band lengths:
349-2083
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)