HsaINT0030802 @ hg19
Intron Retention
Gene
ENSG00000177575 | CD163
Description
CD163 molecule [Source:HGNC Symbol;Acc:1631]
Coordinates
chr12:7635963-7638012:-
Coord C1 exon
chr12:7637692-7638012
Coord A exon
chr12:7636272-7637691
Coord C2 exon
chr12:7635963-7636271
Length
1420 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
ACATGTCTCTGATTTTTCAGACA
3' ss Score
8.46
Exon sequences
Seq C1 exon
AATTCATGTCTCTGAGACTGACCAGTGAAGCCAGCAGAGAGGCCTGTGCAGGGCGTCTGGAAGTTTTTTACAATGGAGCTTGGGGCACTGTTGGCAAGAGTAGCATGTCTGAAACCACTGTGGGTGTGGTGTGCAGGCAGCTGGGCTGTGCAGACAAAGGGAAAATCAACCCTGCATCTTTAGACAAGGCCATGTCCATTCCCATGTGGGTGGACAATGTTCAGTGTCCAAAAGGACCTGACACGCTGTGGCAGTGCCCATCATCTCCATGGGAGAAGAGACTGGCCAGCCCCTCGGAGGAGACCTGGATCACATGTGACA
Seq A exon
GTGAGTATCCATCGACCTATATGAAAATTCCATTCTGCAGCCCCGCTATCATCTTCTGATAATGGACACTGGATTTTATTTTCCTATTCTCACACTGGCTTAAATTGTTAGATTGAATTAAGCAAGAATGGGTAACTTGTGGGTAATATCTATTCTACCTGGATAGTGTAACTGGTTTTATTTAATTTGGCCTGTAGATATTCAGGATCAGCTATTATTATTCTAAAGAATATCATACTCCCCATGGTCTGCTTGAAAGATTTATTCAATTGCTTTCTCTGAGGAGGAGAGAATATGTGGTTTAATATTTGACTGTTGAATGGTCTACCTTACCTTCCCATTTTTCTTTCAAATATTATCTTGTTACACTAATATAAGGAGAAAAGCAGTCAGAAATCAGAAAGATCAATTCTGAAGTATTTCCACATTCTACAGGTTTTTTTTTTTTTTTTTTTTGAGACAGAGTTTTGCTCTTGTTCCCCAGGCTGGAGTGCAATGGCGTGATCTTGGCTCACTGCAACCTCTGCCTTCTTGGTTCAAGCAATTCTCCTGCTCCAGCCTCCTGAGTAGCTGGGATTACAGGCATGAGCCACCATGCCCAGCTAATTTTGTATTTTTAGTTGAGATGGGGTTTCCCCATGTTGGCCAGGCTGGTCTTGAACTTCTGACCTCAGGTGATCCACCCGCCTTGGCCTCCCAAATTGCTGGGATTACAGGTGTGAGCCACTGTGCCTGGCCTCTACATCTTCTTAAACTGTGAGATTTGTGACAACCTGCCAGTTTCCCAAGATCTTGCCTATTTGAAAGAATTTGACATCACATATTTATAATGTTAACTTTAATCATTTAACATTTACTGGGTCACATTATGTATCTTATGTGCAGGATGGAATATACCTAGTTGGCTGTAATGACAAGTCCTCTTATAAAAGATAAATTTTGTAAAAATATAAATTTTAGGCCAGGCACGGTGGCTCACGCCTGTAATCGGACTTTGGGAGTCCGAGGTGGGCGGATCACGAGGTCAGGAGATCGAGACCATCCTGGCTAACATGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGTGTGGTGGTGGGCGCCTGTAGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATGGTGTGAACCTGGGAGGCGGAGCTTGCAGTGAGCCGAGATTGTGCCACTGCACTCCAGCCTGGGTGACAGAGCGAGACTCTGTCTCAAAAAAAAAAAAAAAAATATATATATATATATACATATATATATATAAATTTTAATATGCACATTCAGTAAAATTTTAAATAGTTTTTTTTTTTTTTTAAGTTTCAAATCTCTCTTTTCACCTGTGAACTCCTGGAAACTTTTAGAAGTCTTAGAAATAGGCTACATGTCTCTGATTTTTCAG
Seq C2 exon
ACAAGATAAGACTTCAGGAAGGACCCACTTCCTGTTCTGGACGTGTGGAGATCTGGCATGGAGGTTCCTGGGGGACAGTGTGTGATGACTCTTGGGACTTGGACGATGCTCAGGTGGTGTGTCAACAACTTGGCTGTGGTCCAGCTTTGAAAGCATTCAAAGAAGCAGAGTTTGGTCAGGGGACTGGACCGATATGGCTCAATGAAGTGAAGTGCAAAGGGAATGAGTCTTCCTTGTGGGATTGTCCTGCCAGACGCTGGGGCCATAGTGAGTGTGGGCACAAGGAAGACGCTGCAGTGAATTGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000177575-CD163:NM_203416:11
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=100.0),PF0168214=DB=PU(60.3=90.5),PF135841=BatD=PU(18.5=40.5),PF063657=CD34_antigen=PU(8.7=21.4),PF066977=DUF1191=PU(28.4=69.0),PF151021=TMEM154=PU(17.0=35.7),PF118373=DUF3357=PU(8.6=16.7),PF097774=OSTMP1=PU(13.9=26.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGACTGACCAGTGAAGCCA
R:
CAGGAAGTGGGTCCTTCCTGA
Band lengths:
343-1763
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)