HsaINT0030819 @ hg19
Intron Retention
Gene
ENSG00000177675 | CD163L1
Description
CD163 molecule-like 1 [Source:HGNC Symbol;Acc:30375]
Coordinates
chr12:7525916-7527352:-
Coord C1 exon
chr12:7527038-7527352
Coord A exon
chr12:7526237-7527037
Coord C2 exon
chr12:7525916-7526236
Length
801 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGT
5' ss Score
6.84
3' ss Seq
AGTTTTGTATTTCTCTGTAGAAT
3' ss Score
8.73
Exon sequences
Seq C1 exon
AGGACAAACGGCTCCGCCTAGTGGATGGGGACAGCCGCTGTGCCGGGAGAGTAGAGATCTATCACGACGGCTTCTGGGGCACCATCTGTGATGACGGCTGGGACCTGAGCGATGCCCACGTGGTGTGTCAAAAGCTGGGCTGTGGAGTGGCCTTCAATGCCACGGTCTCTGCTCACTTTGGGGAGGGGTCAGGGCCCATCTGGCTGGATGACCTGAACTGCACAGGAATGGAGTCCCACTTGTGGCAGTGCCCTTCCCGCGGCTGGGGGCAGCACGACTGCAGGCACAAGGAGGACGCAGGGGTCATCTGCTCAG
Seq A exon
GTCTGTGCTGCTACCTTTTCACCCTCCTCTACACACACGTGCACACACTTGCACACACACAACACAATTGTAAAGTGTAGTGAAAAGTGTATGGCCTAGGAATACAAACAAAAAATCCACTTGGTTTTAATCCTATTCTCTTATACTGATTTCTTAATACCCTTGTCATATTACATTTGTCTGGGTATCATTCATAACTGAGAAGAATAAAAGATTGGTCTTACTGTCAGAGAATGTTAGACCCCAAGAAAGGGACCTTACATGACATCCACTCTGGCTCTGAGAACACACTGTCAACCGTGTCCAATCTGCCTTATTTTGTTGTTTTGTTTTGTTTTATTTTAGGCTTTTAGTAGCCTGAAGCCATGGTTATTAGTTTCTGTCTCTAGTGGTAAGAGGAAAGAGGGATGAGGAAGGGTCTTTACTAACCTGACCAGAAGCAGAAACTAAGAACCCATAACTGTATCCTCTCCCTTGGACACCCCTGCAAATGAGGTTAACCTCCTGATTATTTTCTGAATTGAATTTATGTTCGAGAGTAGAATGTAGAAGGTTGCATTTTAACTTAAGTTGATACAAATTTAAAGCTCAAATACTATTCTTGGGAAACCCACACTCATCCTGAAATCTTACAAGACCCTTAGTTTCCATCAGATTTATGCTGTTAATATGTTAGAGTGATTTATGAAATTGTATTGTGAGCCCTAATGTATTATTTCCATGGGAAAAATGGATTCCTTGGGGAGGGATTTTCCAACTCCAAAGGAAATATTTAATACTAAGTTTTGTATTTCTCTGTAG
Seq C2 exon
AATTCACAGCCTTGAGGCTCTACAGTGAAACTGAAACAGAGAGCTGTGCTGGGAGATTGGAAGTCTTCTATAACGGGACCTGGGGCAGCGTCGGCAGGAGGAACATCACCACAGCCATAGCAGGCATTGTGTGCAGGCAGCTGGGCTGTGGGGAGAATGGAGTTGTCAGCCTCGCCCCTTTATCTAAGACAGGCTCTGGTTTCATGTGGGTGGATGACATTCAGTGTCCTAAAACGCATATCTCCATATGGCAGTGCCTGTCTGCCCCATGGGAGCGAAGAATCTCCAGCCCAGCAGAAGAGACCTGGATCACATGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000177675-CD163L1:NM_174941:13
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=92.5)
A:
NA
C2:
PF0053013=SRCR=WD(100=89.8)
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:
TGTGTCAAAAGCTGGGCTGTG
R:
CAACTCCATTCTCCCCACAGC
Band lengths:
357-1158
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)