HsaINT0002221 @ hg19
Intron Retention
Gene
ENSG00000157766 | ACAN
Description
aggrecan [Source:HGNC Symbol;Acc:319]
Coordinates
chr15:89381894-89383417:+
Coord C1 exon
chr15:89381894-89382277
Coord A exon
chr15:89382278-89383242
Coord C2 exon
chr15:89383243-89383417
Length
965 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
GGCGTGTATGTGTCTTGCAGGCA
3' ss Score
8.48
Exon sequences
Seq C1 exon
ACCATGACAACTCGCTGAGTGTCAGCATCCCCCAACCGTCCCCGCTGAGGGTCCTCCTGGGGACCTCCCTCACCATCCCCTGCTATTTCATCGACCCCATGCACCCTGTGACCACCGCCCCTTCTACCGCCCCACTGGCCCCAAGAATCAAGTGGAGCCGTGTGTCCAAGGAGAAGGAGGTAGTGCTGCTGGTGGCCACTGAAGGGCGCGTGCGGGTCAACAGTGCCTATCAGGACAAGGTCTCACTGCCCAACTACCCGGCCATCCCCAGTGACGCCACCTTGGAAGTCCAGAGCCTGCGCTCCAATGACTCTGGGGTCTACCGCTGCGAGGTGATGCATGGCATCGAGGACAGCGAGGCCACCCTGGAAGTCGTGGTGAAAG
Seq A exon
GTGAGAGCCTCCCACAGGGACAGACGCTGCTTCACCCACATAAAGAACCAGAGCAGTCTCCGCAGTGCAGGCGCAGGCAGGCTGGCCTTCAAACCAGCTCCTCCACGCACCTCAGCCAAGTTACTTAACTTCAGCTGCTTCCTCTGTGACATGGAGCTGGTAATATCATTCTCTCTGGACTTAGGGAGCATTAAATACTTCCTGGCTGTGGTCACAGGTAACTGACAGTTTGTGCTTCCCAAGAATCCTGTGATCCGGTGGGTCTTGTGATCGTGCCCATTTTACAGACAAGCAAACTGAGGGCAAGTGACTTGCCTGAGGTTACCCTGGAAATGAGTCAGAGCAGTCTCCTGACAGTTCATCCTGGTGTCTTTTCCCTCCCCCTCTCCACTCTTATTCTCAGTTCCAGAAGCCAAAGCAAGGGCTGAAGACTCCCTGGTCTCTTTCTCTCCATGGCCCAAGGAGAACAGTCAGGTCTTTGGTTAGCTTCAGGACTTTGGTCAACACCAGATTTTTCCCAGGGGGAGGTACAGTGGGAGACTCTGTCAAAGACAGTTCACTCCTGGGCACACCTTAAATGAGGTTTCCACTAGGGTGGCCCTGGGCTGAGGGTGCAGGGCATTCTGAGTGTCTGTTTCTCTTAATGCAATATGGGGGTCTTGGAGTGATAAGAAAAAATTATAAGGAGGCAGATTTTAGTTTAATTCAAAGAACTTTCTCTTTATCAGTATTATCATAAGTCTTTAAAAAGGAATGCCTTATAAAGTAGTGAGCTCCCCATTACAGGGTGTTCCAGCAAATTCAGAAGGATCACGTGCAAAGGTGTACAGGGAGTCATGCATCAGCCCAGACCAGCCAGTTCCCTAAGGTCCCTTTGACTATTGCCATAATTCTGCGAGGGCCTCGGTGATCAGAGACTGTGCCTGACCAGCTCTTCCGCTTGTGGGCGTGTATGTGTCTTGCAG
Seq C2 exon
GCATCGTGTTCCATTACAGAGCCATCTCTACACGCTACACCCTCGACTTTGACAGGGCGCAGCGGGCCTGCCTGCAGAACAGTGCCATCATTGCCACGCCTGAGCAGCTGCAGGCCGCCTACGAAGACGGCTTCCACCAGTGTGACGCCGGCTGGCTGGCTGACCAGACTGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000157766-ACAN:NM_013227:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.031 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0768612=V-set=WD(100=95.3),PF0019312=Xlink=PU(0.1=0.0)
A:
NA
C2:
PF0019312=Xlink=PU(60.4=98.3)
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:
ATTTCATCGACCCCATGCACC
R:
GTCAAAGTCGAGGGTGTAGCG
Band lengths:
353-1318
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)