DreINT0047206 @ danRer10
Intron Retention
Gene
ENSDARG00000020345 | clasp2
Description
cytoplasmic linker associated protein 2 [Source:ZFIN;Acc:ZDB-GENE-040426-2343]
Coordinates
chr19:43177685-43177982:+
Coord C1 exon
chr19:43177685-43177852
Coord A exon
chr19:43177853-43177944
Coord C2 exon
chr19:43177945-43177982
Length
92 bp
Sequences
Splice sites
5' ss Seq
TAAGTAAGG
5' ss Score
5.07
3' ss Seq
TTTTCCTTGTTTTTCCACAGTCG
3' ss Score
11.23
Exon sequences
Seq C1 exon
GGCGTACTGGGGGTTGCGGGCTCATTTCCCCGGGGAGGCGGAGTCTCTGTATAACTCATTAGAATCGTCCTATCAGAGGACACTTCAGTCGTGTTTAAAGAGCTCGGGCAGCGTGGCGTCACTCCCACAGTCAGACCGCTCGTCCTCCAGCTCGCAAGAAAGCCTTAA
Seq A exon
GTAAGGATATCTCATGATTACACAAGAGATCACCATTAGACCAACATTACAATTTAAATAAGAGCTCTGTGTTTTTCCTTGTTTTTCCACAG
Seq C2 exon
TCGGCCGCTGTCAAAGTGGTCAGCTGCTCCTGGCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000020345:ENSDART00000144557:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.439 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF123483=CLASP_N=PD(13.3=50.9),PF123333=Ipi1_N=PD(30.8=56.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGAGGCGGAGTCTCTGTATA
R:
CAGGAGCAGCTGACCACTTTG
Band lengths:
168-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]