DreINT0047184 @ danRer10
Intron Retention
Gene
ENSDARG00000010280 | clasp1a
Description
cytoplasmic linker associated protein 1a [Source:ZFIN;Acc:ZDB-GENE-081104-520]
Coordinates
chr9:38458665-38459972:+
Coord C1 exon
chr9:38458665-38458728
Coord A exon
chr9:38458729-38459808
Coord C2 exon
chr9:38459809-38459972
Length
1080 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACC
5' ss Score
9.24
3' ss Seq
GTTGAATGTTCTGCATTCAGGTG
3' ss Score
6.59
Exon sequences
Seq C1 exon
TCGTGTAGAGCTGAAGAGGCTATGTGAGATCTTCACCAGGATGTTTGCAGATCCTCACAGCAAG
Seq A exon
GTAACCCGAACGAGGACACATTTCTCCACATGCCTGCTTCCATCACACTTAATCTACTCACCAATGACTGGATTAATAGTAGCATTCTATATGAAGGATTAGGTTCAAATGTGTTGCATCATGGACGTTATTATGTATGATTGATTGTATTATAGACTAAAGTAGTAACTTTCATTACTATGGTTTCAGGTTAATTTAACACAGTGTTTGTCAGTGTGTTTATATAGAATTTGCAATGAGACTGCACTAATGGAATGTGTTTTCTGTCGTTTGCATGGTCTGCTTTGGTGTGGATTTTAACAATAGAGAGTAAGTGGATTTTAAAAATACCTGAATTGTTCTGATACACGCATATGTATTAATAATTATATTGTATTTTTACCACCGATGTTTACATTTTCCCCACACATCACATTAAACTGGGAAACTTTATATGAATTGCTAATGCTTGGGATTGGCTATTAATAATTGAAACAAACCAAAACAAGCTTTAAGACAATACGCTTATTCACCTAGCACATTTCATATACAATGGTCATTCAAAGTGCTTTACATAAACAAGAATAAAGGAAACATAAAATACAAGTATATGAAGTATAGGAAAATATGTAGAATCTGTTGGATGTATTCGGTAAAGGTCAATATATTTCTTATTTTTACTTCACTCCTTTAACATTTTCTTTCTTAAAACTTGATTTTTGAAATAATTAAATATTTAATTAATTACAACTATCATAATCTTATCTGTTTAAGTAATGAAATTACTTATTTAATCTTATTTTGCATATTTAATTCACTACATAAGGGTGCTTGGAATGGGAGCCACTAGATTGGAATGTCCTTTCAAAGACTTGGACTGAATTTGCCAAGTTACCCTAGCCTATGTTTAGAAATACATTTAAAAGCAATGACATTGCAGCTACCCTCAGCACCCCTCTATCATTGTTTAGCAGAGTTTAGCACAGGCAAGAACCATTACAAATTTAATACATTAATGAGAAGTAAATGTTAAGCAGTTACTATGTTTTTGAGAGGCAATGCGGTGCAACATTTGTGTGACGTTGAATGTTCTGCATTCAG
Seq C2 exon
GTGTTCAGCATGTTCTTGGAGACACTAGTAGACTTCGTCACTGTGCACAGAGAGGATCTCCAGGACTGGCTCTTTGTGCTGCTCACTCAGCTGCTAAAGAAAATGGGAGCTGACCTCTTGGGCTCAGTCCAAGCCAAAGTCCAGAAGGCTCTGGACATCACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000010280:ENSDART00000137955:25
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=0.005
Domain overlap (PFAM):
C1:
PF123483=CLASP_N=FE(9.0=100),PF116403=TAN=FE(35.0=100)
A:
NA
C2:
PF123483=CLASP_N=FE(23.2=100),PF116403=TAN=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGTGTAGAGCTGAAGAGGCT
R:
CTTGTGATGTCCAGAGCCTTCT
Band lengths:
228-1308
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]