HsaINT0030827 @ hg19
Intron Retention
Gene
ENSG00000177675 | CD163L1
Description
CD163 molecule-like 1 [Source:HGNC Symbol;Acc:30375]
Coordinates
chr12:7585012-7586290:-
Coord C1 exon
chr12:7585970-7586290
Coord A exon
chr12:7585333-7585969
Coord C2 exon
chr12:7585012-7585332
Length
637 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
3' ss Seq
TCTGCTTGTCTTTCTCGTAGGTG
3' ss Score
10.41
Exon sequences
Seq C1 exon
ATGGAACAGATTTGGAGTTGAGGCTGGTCAATGGAGACGGTCCCTGCTCTGGGACAGTGGAGGTGAAATTCCAGGGACAGTGGGGGACTGTGTGTGATGATGGGTGGAACACTACTGCCTCAACTGTCGTGTGCAAACAGCTTGGATGTCCATTTTCTTTCGCCATGTTTCGTTTTGGACAAGCCGTGACTAGACATGGAAAAATTTGGCTTGATGATGTTTCCTGTTATGGAAATGAGTCAGCTCTCTGGGAATGTCAACACCGGGAATGGGGAAGCCATAACTGTTATCATGGAGAAGATGTTGGTGTGAACTGTTATG
Seq A exon
GTAAGAGTCTAACTAGAGTAGGAAGGCAAGGTAAGACCTACCCTCAGGAATCATCTGCTGGAAGGTAGGGGTTTCTATTATGACTTTAATAGTGTCCCTCTGGGAGGTGTAGGAAATATTTTATATATTCTACCCTTCCCTTATTTCCAAAGTAATGTCTAATTGCTTTTCTTTTTATAACTATAACTGAGTTTAGAAAGAAATGGAGAGAGAAAGAGAGAGACAGAGAGAGAATGCATTACAGTTACCAATGTAATATCTTTATCATAACTATAATTGAGTTTAGAAAGAAATGAAGAAGTTTGGGAGCAGGGTTAGCTTTGATTTAAGTGCCTTTTTTCATGTACCAGGTACACTAACAGAACAAATATTTTCTGAAAAATGAGGTATAAAATTAAAGCAAAATGATAAAGAATATCATGCTAATGATTGATTTTTTCACCTAGGATTTTTTTTGTTTGTGTATTTGTGTTTAGAAAAAAGCCTCACATACCCCTCCTATAAGTATTTTCAGTTATTTTTTTTTAATTTTTGGTAACTTCATTCATAACAGGGCTGTCTTCTACGTATCCTTTTGATTTTATTTCAGGCTCAAAGTTGAATCAGTTTTTCATATGTCTGCTTGTCTTTCTCGTAG
Seq C2 exon
GTGAAGCCAATCTGGGTTTGAGGCTAGTGGATGGAAACAACTCCTGTTCAGGGAGAGTGGAGGTGAAATTCCAAGAAAGGTGGGGAACTATATGTGATGATGGGTGGAACTTGAATACTGCTGCCGTGGTGTGCAGGCAACTAGGATGTCCATCTTCTTTTATTTCTTCTGGAGTTGTTAATAGCCCTGCTGTATTGCGCCCCATTTGGCTGGATGACATTTTATGCCAGGGGAATGAGTTGGCACTCTGGAATTGCAGACATCGTGGATGGGGAAATCATGACTGCAGTCACAATGAGGATGTCACATTAACTTGTTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000177675-CD163L1:NM_174941:3
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:
CGTGTGCAAACAGCTTGGATG
R:
GGACATCCTAGTTGCCTGCAC
Band lengths:
345-982
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)