HsaINT0002216 @ hg19
Intron Retention
Gene
ENSG00000157766 | ACAN
Description
aggrecan [Source:HGNC Symbol;Acc:319]
Coordinates
chr15:89414613-89415316:+
Coord C1 exon
chr15:89414613-89414771
Coord A exon
chr15:89414772-89415233
Coord C2 exon
chr15:89415234-89415316
Length
462 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
CACCCTCACCCTTTCCCCAGACA
3' ss Score
10.32
Exon sequences
Seq C1 exon
ACCAGGAGGTATGTGAGGAGGGCTGGAACAAGTACCAGGGCCACTGTTACCGCCACTTCCCGGACCGCGAGACCTGGGTGGATGCTGAGCGCCGGTGTCGGGAGCAGCAGTCACACCTGAGCAGCATCGTCACCCCCGAGGAGCAGGAGTTTGTCAACA
Seq A exon
GTGAGTGCGGCGGGGCCTCTGGAGCCTGAGAGGAGAGTGGCGGTGTAGGCAAAGGGCCTCACCTTTCAGAAGGCAGCAGATTTGGGCCTCGTGAGACTGCAGGACAGGGACCTGGGGGAGGGGGAACAGTGTTCCCACAGTCTGAGCTCCCAGAGAGAAGACAACGGTCTTTGGGGCCAGAAGCTGTGGCTGCAGCCAGGGCAGACCCATTGCCAGCCAGAGTCAGCCCAAGACTAAGCTATGGCTGTCACCCGTCCATGCCAGCTTGGAGAGGTGGCCCGAAGTGCACTCCAGGCATGCACGTGCTGAGCCTCTTGTGAGGACCTGAGAAGCACGTGCCTTGCTCCTAGGAGCCCACCCACCTCCTTTCCTCCTCCATCCCCTCTGCCTCCGTGAGCTCAAGTTTCTCAGACACCCTCAGGGTGTCCAGTGTGATGCCTGACACCCTCACCCTTTCCCCAG
Seq C2 exon
ACAATGCCCAAGACTACCAGTGGATCGGCCTGAACGACAGGACCATCGAAGGGGACTTCCGCTGGTCAGATGGACACCCCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000157766-ACAN:NM_013227:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.244 A=NA C2=0.079
Domain overlap (PFAM):
C1:
PF0005916=Lectin_C=PU(30.2=59.3)
A:
NA
C2:
PF0005916=Lectin_C=FE(25.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGGAGGTATGTGAGGAGGG
R:
TGGGGTGTCCATCTGACCAG
Band lengths:
239-701
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)