HsaINT0028683 @ hg19
Intron Retention
Gene
ENSG00000137944 | CCBL2
Description
cysteine conjugate-beta lyase 2 [Source:HGNC Symbol;Acc:33238]
Coordinates
chr1:89427064-89427828:-
Coord C1 exon
chr1:89427742-89427828
Coord A exon
chr1:89427190-89427741
Coord C2 exon
chr1:89427064-89427189
Length
552 bp
Sequences
Splice sites
5' ss Seq
TCTGTAAGT
5' ss Score
7.96
3' ss Seq
TCTTCATTCTTCATGCTTAGAAA
3' ss Score
6.97
Exon sequences
Seq C1 exon
GTCATACTAATAGTGCCTTTCTATGACTGCTATGAGCCCATGGTGAGAATGGCTGGAGCAACACCTGTTTTTATTCCCCTGAGATCT
Seq A exon
GTAAGTTTGCCAGTATGGTTCATATGGCAAAGTTTCAAGACTTAAGAAGTCTTGAAAATACCAATTACTTTGTCATGATAAAGTTTCTACTTTGATTGCATTTGGAGATTTCCTGTATATCTCTATTTGTCTAGTTGTCTTTTTAAAATATTTTTAACATAAGTAATACACTAAGGTGAGTCACAAAATCTTCAGCTAGCCTTACAATATCAGACATGTTAACCATAGTTATAGCTAGTTCCTGTGAAGTAATATTAGCAGCAGTTAATGTTGACAGGGCTTATTTTTCCATTTAACAGGTGTGAGCATAAGACTTAGGTTTTCTTAGGCTCTTAAGCAGAACTACAGCCCAGTTATTTCTGTTTATCTTCTTTGTTAGTCTTTTTCTAGTTTTTTTTCTGTTCCTACTGCAGGAAAGCATTTGTTGGTAATTTATTCAGTTTCCTTTGCCATGACTTTCTTTGATGTTTTTTTCCTTATTAGGTTATTCGTTTGTAAGACAGTAAACATGACTTAATTGAATTAAATTATATCTTCATTCTTCATGCTTAG
Seq C2 exon
AAACCTGTTTATGGAAAAAGATGGTCTAGTTCTGACTGGACATTAGATCCTCAAGAACTGGAAAGTAAATTTAATTCCAAAACCAAAGCTATTATACTAAATACTCCACATAACCCACTTGGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000137944-CCBL2:NM_001008661:6
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:
PF0015516=Aminotran_1_2=FE(14.1=100)
A:
NA
C2:
PF0015516=Aminotran_1_2=FE(10.7=100)
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:
ACTAATAGTGCCTTTCTATGACTGCT
R:
TGCCAAGTGGGTTATGTGGAG
Band lengths:
206-758
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)