HsaINT0030813 @ hg38
Intron Retention
Gene
ENSG00000177575 | CD163
Description
CD163 molecule [Source:HGNC Symbol;Acc:HGNC:1631]
Coordinates
chr12:7486894-7487673:-
Coord C1 exon
chr12:7487359-7487673
Coord A exon
chr12:7486987-7487358
Coord C2 exon
chr12:7486894-7486986
Length
372 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
GAGTACCTTGGTGTTTGCAGGAA
3' ss Score
6.12
Exon sequences
Seq C1 exon
GATACACAGAAATTCGCTTGGTGAATGGCAAGACCCCGTGTGAGGGCAGAGTGGAGCTCAAAACGCTTGGTGCCTGGGGATCCCTCTGTAACTCTCACTGGGACATAGAAGATGCCCATGTTCTTTGCCAGCAGCTTAAATGTGGAGTTGCCCTTTCTACCCCAGGAGGAGCACGTTTTGGAAAAGGAAATGGTCAGATCTGGAGGCATATGTTTCACTGCACTGGGACTGAGCAGCACATGGGAGATTGTCCTGTAACTGCTCTAGGTGCTTCATTATGTCCTTCAGAGCAAGTGGCCTCTGTAATCTGCTCAG
Seq A exon
GTAAGAGGATGACGGGCAGCCAGTGATGGGTCTTAAGAGAAGGTGTACATAGGGATGAAGAACAAAAGTAAAACGCAGTGATCCATTTTGAAGGGTCATGAGAAGAATGAATACTAATTCATGCTTCAGAATATTAACCTCATTTGTCTTTTCAGAGGGTGAGCAAACCTAATTTTGATGGACTTCTTAGTTATCCAGTGCTTACTATGTGCCAAGCCCATCTCAAAGCACCTGATTTATTTCAAACTTGTTGACCATCCACCTTCCCCTCTCTCTCTAAGCTATGTTTGTCCTCAACTCATCCATATAACATTTCATCTGACTCCCCTAACCTTTTGTGTCTTGTATGACTGAGTACCTTGGTGTTTGCAG
Seq C2 exon
GAAACCAGTCCCAAACACTGTCCTCGTGCAATTCATCGTCTTTGGGCCCAACAAGGCCTACCATTCCAGAAGAAAGTGCTGTGGCCTGCATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000177575:ENST00000359156:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.005
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=40.2),PF0053013=SRCR=WD(100=40.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGAGTGGAGCTCAAAACGCT
R:
AGGCCACAGCACTTTCTTCTG
Band lengths:
356-728
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