HsaINT0035755 @ hg19
Intron Retention
Gene
ENSG00000163539 | CLASP2
Description
cytoplasmic linker associated protein 2 [Source:HGNC Symbol;Acc:17078]
Coordinates
chr3:33644444-33645701:-
Coord C1 exon
chr3:33645646-33645701
Coord A exon
chr3:33644618-33645645
Coord C2 exon
chr3:33644444-33644617
Length
1028 bp
Sequences
Splice sites
5' ss Seq
GAGGTAATT
5' ss Score
8.88
3' ss Seq
CTTTGCTTTGTATTTCGTAGTAT
3' ss Score
7.83
Exon sequences
Seq C1 exon
TCGCCCTTTTTCTTCCAAATGGTCTACAGCAAATCCATCAACTGTGGCTGGAAGAG
Seq A exon
GTAATTTTCTCTTTAAATAAGAGTTATAACCTATTTTATCTTTGAAACAGTAGCCTTCAAACTCTTTTGATGTGCTCCATAGTGAAAAGATCGTTTTACTTGGTAACTCAGTACCACACATATGCACTGTACCTGTATATGTATACGTGTATACATATATAATAAAACCCGAAGTTCCAGGAAGCCATACTTACTCTTACTTGTGATGCACTCTGTTTTCAATTGTTTCATTTCTTCATAATGCTTCTCATGACGCACTCAGTTGATTTTACAACCTATTAATGGGTCATAACTCACAGTTTATAAAACTCCTGACCAGCCTGGCCAACATGGGGAGACCCCATCTCCACTAAAAATACAAAAATTAGCAGGGCATGGTGGCACGTGCCCATAATCCCAGCTACTCAGGAGGCTGAGGGAGGAGAATCACTTGAACCCAGAAAGTGGAGGTTGCAGTGAGTCGAGATCGCGCCACTGCACTCCAGCCTGGGTGACAGAGCGAGACTTTGTCTCAAAAAAAATAAAATAAATAAAAATAAAAAACTGAAAAACTGAAGACCAGAAATTGAATGACTTAATTTGCATTCCCATGGAGTGGCAGAACCTCCATTAATTTTTTAATATCTCTACTCCTGGACTAGTTTTTCTTGTATTTTTATCATAGTAAAAAATAATACTGCTGCTTTCTATTTATCTTGTACAGTGCTTCCTTTGCACAAATCAGTCCTAAACATCATCTCTTCATCTACAAAACAGTCCTATGAATTTTACAGTCACAATGTCACCATTTTTCCCATTTTTATGGGAGAGAAATAAGGTAGAGAAATATTGAGAAAATTGCTGAAGACTTAGTTGTGATTGAAACTGAGGCATTCTGACTTTAAAATGCTTAATAGTACTGTCCATTTGGCCACAGCCTTTTTGTTGACCATTTGTCATCAGATTAGCTCATGGTGGTCAGGTTTATATAATTTTCATGTTTTCAGTGATTTAAATGATATAAGTTATCTTTGCTTTGTATTTCGTAG
Seq C2 exon
TATCAGCAGGCAGCAGCAAAGCCAGTTCCCTTCCAGGAAGCCTGCAGCGTTCACGAAGTGACATTGATGTGAATGCTGCTGCAGGTGCCAAGGCACATCATGCTGCTGGACAGTCTGTGCGAAGCGGGCGCTTAGGTGCAGGTGCCCTGAATGCAGGTTCCTATGCGTCACTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000163539-CLASP2:NM_015097:17
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=1.000 A=NA C2=0.979
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
TCGCCCTTTTTCTTCCAAATGGT
R:
CTAGTGACGCATAGGAACCTGC
Band lengths:
230-1258
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)