DreINT0047171 @ danRer10
Intron Retention
Gene
ENSDARG00000010280 | clasp1a
Description
cytoplasmic linker associated protein 1a [Source:ZFIN;Acc:ZDB-GENE-081104-520]
Coordinates
chr9:38429009-38429798:+
Coord C1 exon
chr9:38429009-38429154
Coord A exon
chr9:38429155-38429662
Coord C2 exon
chr9:38429663-38429798
Length
508 bp
Sequences
Splice sites
5' ss Seq
AGGGTATAA
5' ss Score
2.31
3' ss Seq
TGGGTTTTGCCATCCCTCAGGCA
3' ss Score
7.31
Exon sequences
Seq C1 exon
TTGAAGAAAATGCGCTCACTGCTTATGGCTGGTGCGACTGAACATGAGGGTTTCATTCAACAGCTACGACTTTTAGAAGGTGCCTTCAAGATGTCGGCTAAAGATCTTCGGTCGCAAGTGGTTCGAGAGGCCTGCATCACATTAGG
Seq A exon
GTATAAAGACACTCTTCTTTAAATCTTTGTTAAAAAATTAGGTGTGACAAACACTGCCAAAATTACAGCTTGTTTACAGTCAGTTGGTTAAAAGCCGCATTTTGATGTGTGCTGATCAAAGACACACTTCAACAACAAGGCCAATTTATCACAAATCCTGTCTTAAAGGCACTTTATCACACTCTGCTGTAAGTTCTGTTTCAAATATCATCAGGTTACAGCTTTTAATAGTGCTGTTTAGAGGGGTAGATGGAGCTGTTGTGCATGTCTCTGTGATTGAGCACGGCTCTTTAATTATTCTGGCTCTTAATGTGTTTCTAATGAAGTGTAACAGAGCTGACTGGAGCGTGCAGGACAGCTCCTCTGCTAAAGTGCAGCCGCTTGATGGATATCTAAACAACTTCCATGTCTTAATGTCACCCAAATTTGATTCATTCCCATCTAGACCAGAAGTTTACGCATCTTCATATTTGTGTCTTGTTGATTGGTGGGTTTTGCCATCCCTCAG
Seq C2 exon
GCATCTGTCTTCATTGCTGGGGAATAAATTTGATCACGGGGCTGAAAGCATCATGCCGACGCTGCTCAACTTGGTGCCCAACAGCGCCAAAGTTATGGCCACATCTGGAGTGGCTGCCATCCGCCTCATCTTACGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000010280:ENSDART00000137955:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF123483=CLASP_N=FE(22.0=100)
A:
NA
C2:
PF123483=CLASP_N=FE(20.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAGAAAATGCGCTCACTGC
R:
GTAAGATGAGGCGGATGGCAG
Band lengths:
279-787
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]