HsaINT0030799 @ hg19
Intron Retention
Gene
ENSG00000177575 | CD163
Description
CD163 molecule [Source:HGNC Symbol;Acc:1631]
Coordinates
chr12:7632456-7633852:-
Coord C1 exon
chr12:7633757-7633852
Coord A exon
chr12:7632593-7633756
Coord C2 exon
chr12:7632456-7632592
Length
1164 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGT
5' ss Score
6.84
3' ss Seq
AATTATTTTCTTCCTTTCAGAAA
3' ss Score
10.55
Exon sequences
Seq C1 exon
TTTCCTCAAGAGGAGAGAACTTAGTCCACCAAATTCAATACCGGGAGATGAATTCTTGCCTGAATGCAGATGATCTGGACCTAATGAATTCCTCAG
Seq A exon
GTCTGTGGGTTCTTGGAGGGTCTATTGCCCAGGGGTTCAGATCAGTGGCTGCAGTTGAGGCACAGACATTCTACTTTGATAAACAGTTAAAAAAGTCTAAAAATGTAATAGGAAGCTTAGATGCATATAATGGACAAGAATGACTGAAAATTATTCTTGGAGAATATCAAAATTGCAATCATAGGGAGGCCTTTAGCTTAAGAGGCCTGTGATTATTCCTGATAGAGGTATGGAAAGAACCATGCAGAGGAATATTATGACTTGGACCTCATTTTATTAAAACAGAAATTAATCTTACAAAAGATTGTCATAAGTGACAGTTTAACTTTTTTCTTTAAATTTTGTTGTGTATATTTAAGGTATACAACATGATTTTATGGGATGTATATAGATAGTAAAAAGCTTACTAAAGCAAAGCAAATGAACACACCCATCATCTGACATAGTTACCCTTTTTTGTGTTGTTCTTGTGGCAAGAGCAGCTAAAACCTACTCACTTAGCATGAATCCTACATACAGCACAATGTTATTACCTATAATCCTCATGTTGTACATTAGACCTCTAGACTGGTTCATTCTACGTATCTGCTACTTTGTATCCTCTGACCTACATACGTCTTTCACAGTTTCTTCCATTCCCATTTCCTGTCATTTTTTTTCTCTAGCTTGATATTTATTATATTTTTCCCTAAAAGTCTAAAACCTTAAACTTTCAATATCTTTATTGCATGAGAAGCCATACAAATCCACAGAACTAGCCTTATTTCTCATCACATCATGCTGTTTTATCCTTGAACTTCTATTTAGCACCAGTGCACTAATTCTGCATCTGGGCAGGATGACTTTACTGGGTTGGAAGAAATATCCCAAAACCCATTGTCTTTACTCCATGAAGGGTCCCTGACCTTCTGAGAGGGGCCTGCCTCACTTCTTCCATCCAAAGAATTATGCATCTGCTACTGTGTCAGGGAACATATTTAAGGAACATGTACTGTTACTGTGTCAGGAAACATATTTAAGAAATAGGAAAGACTTTCTCTGCCCCTTAAATCACACATGCTTTTCTTCCTAGTTATGGGTGGTGTTTTTAGTTGCTCAAAGAGCCTCACAGTTACGTGAGAAGAGGTCTGGTTTATTTCCCAGTAATTATTTTCTTCCTTTCAG
Seq C2 exon
AAAATTCCCATGAGTCAGCTGATTTCAGTGCTGCTGAACTAATTTCTGTGTCTAAATTTCTTCCTATTTCTGGAATGGAAAAGGAGGCCATTCTGAGCCACACTGAAAAGGAAAATGGGAATTTATAACCCAGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000177575-CD163:NM_004244:15
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.054 A=NA C2=0.143
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF135841=BatD=PD(21.7=46.5),PF063657=CD34_antigen=PD(37.9=90.7),PF066977=DUF1191=PD(17.6=41.9),PF151021=TMEM154=PD(20.5=41.9),PF118373=DUF3357=PD(23.5=44.2),PF097774=OSTMP1=PD(16.5=30.2),PF0769011=MFS_1=PD(41.9=72.1),PF041569=IncA=PD(34.5=46.5),PF145751=EphA2_TM=PD(37.0=46.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGGAGAGAACTTAGTCCACCA
R:
ACTGGGTTATAAATTCCCATTTTCCT
Band lengths:
222-1386
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)