HsaINT0002218 @ hg19
Intron Retention
Gene
ENSG00000157766 | ACAN
Description
aggrecan [Source:HGNC Symbol;Acc:319]
Coordinates
chr15:89416112-89417255:+
Coord C1 exon
chr15:89416112-89416256
Coord A exon
chr15:89416257-89417072
Coord C2 exon
chr15:89417073-89417255
Length
816 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
AAAGGGTGTTTGCCCCTCAGTGG
3' ss Score
4.85
Exon sequences
Seq C1 exon
CAATTTGAGAACTGGCGCCCCAACCAGCCTGACAACTTTTTTGCCGCTGGAGAGGACTGTGTGGTGATGATCTGGCACGAGAAGGGCGAGTGGAATGATGTTCCCTGCAATTACCACCTCCCCTTCACGTGTAAAAAGGGCACAG
Seq A exon
GTAAGCTGGCGCCTGGGAGGGGTCAGGGGAGGATAGGATCAAGACCTCCAGCTACAGGTGAGGCTCTTGCTGTGTGGCCTGGGGTGAGTCCCTTGTCTTCTGGCTGCTGGTGTCTCCTCACTTGTCCAAAAGGCAGACTGGAGCTGACCTAGGGGTCCCTCCTAGCACCGGCATCCCAGGGCCAATGGCAAGGGCAAGCTCGCTGCCAGGGACCGTTTGCAGGGACAGCAAGCACATGAAGGTCACAGGCTAGAAGACAGGACCCCCACTCCACACTCCACACAGTCCCTTGGATAGCAGCAGCAGAGTTACCCACAAGGGCCCCCAGATGGGGAGCCTCCCTGTCTTTGGGATTCCCAAGGCCATCAATCACAGAGTCATAGTTGTCAGGCCTCGATCCTTTGGCTTTCAGTCTGTGGACATTGAGGTGCTGGTAGGATGCGCCCCACTGCCCCTGCTCACCACCTTGCGTCCCCCAGGCCTCCTTTCAGTCTCATTTTCCCCTGAACTAGATGTTTTCATCAAGAAGCCTGAGTCTGCCTGGCTCTCGCCCTCCACACCTTTCTACCTCCCTTTCATCTTCTCTTCATCCCTTTAAAGACCACCCCGTTTGTATTCCCTTCCTGCTGTTCTAAATTGTTGAGGAACCCAGATGTTACAGCCAGCGGCTTCCAGATTCTTAGCGCTGCATGAAAACGTCCAGGGCTCACTGTCAGATGTTGAGGCTGTGTCCCCCACAGTGCCTCGGGTCACAACCAGCATAGGTCATCCCAGGAGACCCTATGAGACCCTTTATAAAGGGTGTTTGCCCCTCAG
Seq C2 exon
TGGCCTGCGGAGAGCCCCCTGTGGTGGAGCATGCCAGGACCTTCGGGCAGAAGAAGGACCGGTATGAGATCAATTCCCTGGTGCGGTACCAGTGCACAGAGGGGTTTGTCCAGCGCCACATGCCCACCATCCGGTGCCAGCCCAGCGGGCACTGGGAGGAGCCTCAGATCACCTGCACAGACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000157766-ACAN:NM_013227:16
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.094 A=NA C2=0.145
Domain overlap (PFAM):
C1:
PF0005916=Lectin_C=PD(42.5=91.8)
A:
NA
C2:
PF0008415=Sushi=WD(100=91.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATTTGAGAACTGGCGCCCC
R:
GTCTGTGCAGGTGATCTGAGG
Band lengths:
326-1142
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)