HsaINT0002220 @ hg19
Intron Retention
Gene
ENSG00000157766 | ACAN
Description
aggrecan [Source:HGNC Symbol;Acc:319]
Coordinates
chr15:89379431-89382277:+
Coord C1 exon
chr15:89379431-89379507
Coord A exon
chr15:89379508-89381893
Coord C2 exon
chr15:89381894-89382277
Length
2386 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
ACCCCACCTCTCCCACACAGACC
3' ss Score
8.95
Exon sequences
Seq C1 exon
GTGAACTATGACCACTTTACTCTGGGTTTTCGTGACTCTGAGGGTCATCACTGCAGCTGTCACTGTAGAAACTTCAG
Seq A exon
GTGAGGACATTCCTATACATGTTTCACGTATTCAGTAGGCATGAGTAGTGGGTTTGAGTACTGGGTACTGAACCTGGTGCTACTGGTCCCAGGGATATAATTTCCCCTTTCCTGGACTTTTCCTGGCCCCACCCTTCCCCTGTTGATGCATGCATAACTGTGATGGGATAGCACCCATGCGCGGGCACACTCTTGCAGGAGCCTTGCTCAGATAACACTGCTCCTGACTGCCCTCAAGCCCCGACAGCTGGCAGGGAGAGCTCCCGGCAGGTGCCCTCCTTCCCTCCATGGATCTCAGTGAGGACTGCTGCGCACTGAGCTTGCCGGAGGGGCAGGACATAGACAAACCAGTGGAGAAAGGACCATTGAGGGAGGATCGGCTGGAGCACCAAAGAAGAAAGGTCACTTGGGAGACAGCCAGAGAAAAGCCCCAGGGAATCAGACAGGTCTTTGCCTTTTCTGCAAACCATCCTCGGGAAGCCCCAGCCTGGTCTCGTGCATGTGGAAGGCACTGGGTCTACTGCTAATCCAGCATTGGACCAAATGAGCAAAACTTCCACTGACCCCAGGATGGGCTTGACCCCAGAAGGGAAGGTATGTCTTCCCCAGGCCCAGACAAGAGAGGACTCTGCTCTTGGCTGTGTATTTTAGAGGCCCCCACTGGCCATCCTCCAGCCTCAACCCTCTCCAAAGGAAGGGGAGTCAGCAGGGCCAATGTGTCTGCCCAAATCTGCACTTCCCCTTTAGAGCACATTCTGGGGTCCCAGGATGCCCAGAATTTCCCCTCCAAGTGGGCCCAGGCCACATCCAGGGCCTGCATGGGTCCATCCTCCTACGGGGACACCATACCCCTGGTGGGAGCCACCCTGGGCCCAAGGGAGGGGCCAAGGAGTGGCTGTTTGTATGGGGTGTGGGCAGAGCAGGGCTGTGGGGCTGAGATAAGCACAGCAGCACATGAGACCCCCTCACAGTGCAGTCAGTGTGGGAAAAAGAAGGCGGCCCAGCTCCCCATGCTCCCACCCAGCCACTACAGCCCAAGGCAAAACACCAAGTAATCCAAGAATTCTGAATTTAAATCTGTGCTTTCAGGTCATTTTGAAAGGTACCATTGTCAAATAGGAAGATAGGACATAGAACTTAACAATCTGTTGGCCTGATTTACAACTTTTGCATCTGTAGACATATGGGACAAGGGCCTTCATTTGTACTGTTGCTGGGAGACCCACAGCCATGCAGCCCCTGGCTGTACCCAGGGGTGGTCCGCCCACACAGGGAAACCAGTTCATTAGGTTTGAGTGGGGCTTTAAAAACTGCTGAGCTGGGCACGACAGTCCCTTTCAGCTCTCCCCTGAGAACCACTACTGCTAAAACCAAGCCATGTCCAGGGTGCGAGGGCCCAGCACTCGGAGGAAGATGCCTGTGGAAGGGGCCAGTGGGACTGCCCAGGACATCAGAAGGTTAAGGCCTGGACTCTAAGCATTCCTCGCTCCCCTCCCCTTGCCCTGTGATGTATCTACAACCCACAAATATCTGAAACATTTTTTATTTCAACCTGTAGGCCCCCATGAAAGAACAGGTTTCATAAATGTATGAGTCTCCATGAAAGGTGCTTTTTTTTTTTTTTTGGAAAGCTGTTTTTTTTCTTTTTTTTTTTTCCCCATTCCCAGCAGATCTTTTGTTTCTAACAAGATTTGGTAAGCTTGTTGCACCTCCTCTATTGACACTCTCCATTATATTAACATGTTTGGAGTCTGATCCTATCCCATCGCCTCTCCTGCATCTGACTGTTTGCACACCAAAAGGTCTGATCTTCTCGGATGCTTCTCCACCTGAGTCCCCTGACTCCCAAACAGCAGAAGAGAGTGACTTGTCCCGGTGGCAAAATCAGGCTCGCACCCAAAAGCAGACCTCCCCAAATGGGACACATCTTAGAAGTTTTCTGTCTCAGCTTTAAAATTGTGTAGATTACTTTTCTACCCCAACATAATTTTTCCCAAAATCTTTGAGTTAAGCTGTCACTCCAAGGAGATGGGTCCTGTTTTATTCCACGCTTTGGTGCCCACTGCAGTACCCCAGTTTGAGAAACAGGGAGTTGGTCCTGACTCTGACGTCTCCCCTCCCTCCTCTGGAATCCTTTTCTAGCTCCATAGTTTCTGTCTCGAGATGCAGAGGCCAGGGGTCTTGAGGAACACTGCTCTGGAAAGGGCGTGGCAAGCCTTTCTGGGAATTCCCACATGACACGGGAGCATCCCCATCATAGAGACAGACACACTCATCGGATTTCGCTCTCTCAGGAGAGTGCATTGCTGGAAGGATGGATGGGGAGGCGGGGTGGTCCTCTCTAGGCACTAACAGGTCTCTCTTCTACCCCACCTCTCCCACACAG
Seq C2 exon
ACCATGACAACTCGCTGAGTGTCAGCATCCCCCAACCGTCCCCGCTGAGGGTCCTCCTGGGGACCTCCCTCACCATCCCCTGCTATTTCATCGACCCCATGCACCCTGTGACCACCGCCCCTTCTACCGCCCCACTGGCCCCAAGAATCAAGTGGAGCCGTGTGTCCAAGGAGAAGGAGGTAGTGCTGCTGGTGGCCACTGAAGGGCGCGTGCGGGTCAACAGTGCCTATCAGGACAAGGTCTCACTGCCCAACTACCCGGCCATCCCCAGTGACGCCACCTTGGAAGTCCAGAGCCTGCGCTCCAATGACTCTGGGGTCTACCGCTGCGAGGTGATGCATGGCATCGAGGACAGCGAGGCCACCCTGGAAGTCGTGGTGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000157766-ACAN:NM_013227:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.031
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0768612=V-set=WD(100=95.3),PF0019312=Xlink=PU(0.1=0.0)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)