HsaINT0035754 @ hg19
Intron Retention
Gene
ENSG00000163539 | CLASP2
Description
cytoplasmic linker associated protein 2 [Source:HGNC Symbol;Acc:17078]
Coordinates
chr3:33645646-33648250:-
Coord C1 exon
chr3:33648083-33648250
Coord A exon
chr3:33645702-33648082
Coord C2 exon
chr3:33645646-33645701
Length
2381 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGG
5' ss Score
7.66
3' ss Seq
GCATTTTTTATACTTTGCAGTCG
3' ss Score
6.89
Exon sequences
Seq C1 exon
GACATACATGGGTCTTAGAAACCACTTTCCTGGTGAAGCTGAAACATTATATAATTCCCTTGAGCCATCTTATCAGAAGAGTCTTCAAACTTACTTAAAGAGTTCTGGCAGTGTAGCATCTCTTCCACAATCAGACAGGTCCTCATCCAGCTCACAGGAAAGTCTCAA
Seq A exon
GTAAGGTCATATAAATAATGATTACTAGTCTCTTCCTCTCCTCAACTCCCTGAAGTTTCATAAGTTGGATACTTGAATATCTGTTTGCTTTCACCTAAAGCCTTGAAAGAATGGTAACTCTAATACACTTATTTATTTTGGTCTACTGTTTCAAGAGTTGGATTACTTTCCAGCATAATTCCTTCTCTTTGGATAAAGAGTTCTATGATTCATATTTTGCTTCAATATGTTCACGTCTGTAGAAGCCTGGGAAGCACTACATTTTTTTTTAATACCACAAAAACAGTACTTACAATAAATAGCCCATTTAATGGAGGAATTGTAATGGAGATTCAGAAGTTATCTTGAGAATTCTACAACACTATGTGACTAGTCTGCTTTCCTTCCTAACCTGTCGCACAGCTTAAAAATTCAGGAAATCCCTCAAGGGACAACATTATCTAGTATCTGACTTAGTTCTCTGTAACTCCATTCTCATCTTGATGACGGCTACCTCAAATCCTTACTGCTTAGCAGCCATAACCCTGTTTTCTGTCTCTCTAGCCCTATGAGATTGCTAAAATTACTGATGCCTTCTCCACTTCCTAGCACTGGCCCTGTCCCTCTTCGTGACCTCTTGCCCTGTGCCATGTATCTGCAGATTTCCCCCAGGGAAGAGCAGCTCAGAGAATGTCAGCTTAGGCCAGGCATGGTAGCTCATGCCTGTAATCCCAGCACTTTGAGAGGCTAAGGCGAGCAGATCACCTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACATGGTGAAACCCCATCTCTACTAAAAATTAGCCAGGCATGGTGGCGGGTGCCTGTAATCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATCGTTTAAACCTGGGAGGTGGAGGTTGCAGTGAGCTGAGATCGTGCCACTGCACTCCAGCCTGGGAAACAGAGTGAGACTCTGTTTCCAAAAAACTTCTCTGTAATTTCTTTCTTTTTGGGATCTTGACCACCACAAAGATTGCCGGTTTCCTTGGCAACTCTGATGCAGAACTGGGACCAGGGTGAGGCAAGTGAGGCACCTAGGGTACAGAATTTAAGCAGGCACTCACTGGGTCATTCAAATACTGTACTAAAGTTCAGTTGCTTATAGGTTTTCAGAGTAAAAGCAGTTATGATCTGATTTCAAAAATAATTGTTGTAGGAATAATGACCTATCTAAACTTTTATTTAAATTTCTGTTTAAACTTCTATTTAAATTTGTGATAAGTTCCTCATCTGAAATGAGCTGTCTTTGTTGCTTTTGTTCTCTTTTTATTAACTATGCTCAGACTTTAAAGTATATACAAATCACCTGAAGATCTTTTTAAAATCTAGAATCTGATTCAGTAATTTTGGGGTGGGGCCTGAGATTTTTCATTTTTTGCAAGCTCCTAGGTGATGCTAAATGCTGTTTGTTCATGGACCATATTTTGAGTACAAAGGATCTAAAGGAAGATATTTTATATTGCTCTAATGTAACATTTTTAAACATAAACAACTTTAGATTCTGTGAACCTTAAAGTGATCCGCCTCAATCTAAGAGAATAACAATTTTGGGAGACACTTATAAAAATAATGTGATGTTAGCTTAAACATTACACGGACATTACAACCTTACAACTTAGGTGAGAGAGGCTTTGGTTATGCTGAGTTGCCTATGTGCTAGTGATAACACTACCCCTTTCTTCTAAGTAAAATATCTCAGGATACAAGTGAAAAATAATAGTACTGTTATCGAGTTCTCTTTGGTGGTCACCATGATGTGTGTTGAGGAGCAGAGTGAACAAAGGCAACCTGATCCCTGTCTCTGTAGAGCTTAGTCTTTATTCACTGCCAGTATTTTATTTTTGCTTCATAGCTAATTGAGACACATTGATACCTGATGATTGGGAGGAACTGTTCTAATGCGATTTGTAAAAGGAGAATTCAAATTGGAAGTACCAGCTAGGCACGGTGGCTCACACATATAATTCCAGCACTTTGAGAGGCTGAGGTAGGAGGATCACACTTGAGCCCAGGAGTTTGAGACCAGCCTGGGAAACTTAGGGAAACCCGATCTCTATTAAAAATTTAAAAATTAGCCACGCTTGGTGGCAGGCACATATAGTCCCAGGTAACTTGAGAGATTGAGGTGGGATGATCACTTGAGTCTGGGAAGTCAAGACTGCAGTGAGCCATGATTATGGGACTACACTGTAGCCTGGGTGACACAGCAAGACTCTGTCTCAAAAAAAAAAAAAAAGAAAAAAGAAATACTTCTCAACTTTCCACAAAATTCAGTAGTATTTTATTGGTTTTTATCAGAGGAGTGTTAAATTGTCTTCTTACTAAAAGCATTTTTTATACTTTGCAG
Seq C2 exon
TCGCCCTTTTTCTTCCAAATGGTCTACAGCAAATCCATCAACTGTGGCTGGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000163539-CLASP2:NM_015097:16
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.616 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF123483=CLASP_N=PD(13.3=50.9),PF123333=Ipi1_N=PD(6.5=8.8)
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:
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)