HsaINT0035720 @ hg19
Intron Retention
Gene
ENSG00000074054 | CLASP1
Description
cytoplasmic linker associated protein 1 [Source:HGNC Symbol;Acc:17088]
Coordinates
chr2:122165047-122166623:-
Coord C1 exon
chr2:122166600-122166623
Coord A exon
chr2:122165292-122166599
Coord C2 exon
chr2:122165047-122165291
Length
1308 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCA
5' ss Score
7.87
3' ss Seq
TCCCTCATTGGACCTGTCAGAAG
3' ss Score
1.42
Exon sequences
Seq C1 exon
CTGTTAGGAGACTCCAGGAGCAAG
Seq A exon
GTACCAGTCCTTTAACTTTTGTTTTACAACTTTATTTCTCCTGTTGCAAGTATATTTCTTTTAGAAGCTAGTGAAAACCAAAAAATGTAGTATAGAAATTCTGGTCTGAAATATGATTTTGTTGAATCATAACAGTGATTCACCATCATTGTTGTCTTTATTCATGGTGGAGTCAGCCACCTTTCATGTACATCTGTTTTAGTATTTATTTTGAATGTCAAGCTCTGCTCCTTCGCCTAGTAGTGTTTCATTTTATTAACTCAGTTTGTGCCTATTCTTACGTCGTCATGATTTCATGAATGGATTTATCAACATTTTTCTTATTTTAGGAATCTGGATTTTGTGTGACCATGTAATTTATTATCCAAACAAAAATGCTTTTGAGATTAAAAGGGGGATGCTATCAATAATTATGACAATAAGCTTAAGGCAGAACAGTCCTGAGCAAGTTGGATTAACAATAATACGCCATATTATTAAAGAAGTATATTTGTATGGTTTAAGCCAATCGCTATTTGTTTTGTTTTTATCAATTTTGTATAGTTGCTGCTATATCATATTTGTGGGTATAACAGTTTTGTATTCAGGGTCAGAGAAGTGAATAAAGTGGGTATTATAGTCTACTTTCAAAGAAGCCTATTTGTGTTTCAAAACCCTAAGTCTTTAATAAAAGTGGCCAGGAGTTCAAAACCAGCCTGGGCAACAGAGGGAGATGACTTAGAAATCCTTTTATGTGGGCTGCTTCTGCCATTGACATTTCAAATTCTGACTTTTTTAGGAAACATAAATATTCACACAAGTTTACCCATAGACTGTGCTCAAGATATATTGCTTTTGACTGGGGAGGGGCTGTTGGCTGCACATATTTGCATTGTGCCAGGTGCCCAGCTGAAATATTTAACATATAATTTCATTTAATCTTCACAACAAGCCTGTATGATAGGTTTAATTATTGTTGTCTTAAAGATGGGGAAACTGAAGCAAAAGGCCTAGGAGGCTTTCAGAAGTCATGCAGCCCAGTCAGTGTTGGCACCAAGGTTGTGATCTGTCTGTCTTCCTGTAAAGTCTACGCACTTTACTAGAGGCCATACTCTTTCCCTTCTACTACAGAGTGCTTTGCTTATTTACCTAATGGAAAACTGCTTTTCTGTTTTTATTTCCCTAATCTATAAGCACAGGAAAAGTGTGTGTGTGCATGTGTCTTTTTACACTTAACTCTTTGTTGTAGATTTTGTTTGGTGTGACTCACAGTCATTTCACCTTTCTATTTCTTCCTCAATCACTCCCATCCCTCATTGGACCTGTCAG
Seq C2 exon
AAGAAGCCTGTGAGGAGGAGATATGAGCCGTATGGGATGTATTCTGACGATGATGCCAACAGTGATGCCTCAAGTGTTTGCTCTGAGCGCTCATATGGCTCCAGGAATGGTGGCATTCCCCATTATCTGCGGCAGACTGAGGATGTAGCAGAAGTTCTCAACCACTGTGCTAGTTCAAACTGGTCAGAAAGGAAAGAAGGGCTTCTGGGCCTGCAGAACTTACTGAAGAGCCAAAGAACACTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000074054-CLASP1:NM_001142273:25
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=1.000 A=NA C2=0.814
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF123483=CLASP_N=PU(16.2=46.3),PF116403=TAN=PU(50.7=45.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTAGGAGACTCCAGGAGCA
R:
TCAGTGTTCTTTGGCTCTTCAGT
Band lengths:
267-1575
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)