DreINT0047221 @ danRer10
Intron Retention
Gene
ENSDARG00000020345 | clasp2
Description
cytoplasmic linker associated protein 2 [Source:ZFIN;Acc:ZDB-GENE-040426-2343]
Coordinates
chr19:43220997-43221880:+
Coord C1 exon
chr19:43220997-43221140
Coord A exon
chr19:43221141-43221736
Coord C2 exon
chr19:43221737-43221880
Length
596 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAA
5' ss Score
6.82
3' ss Seq
ATTTTGTGTGTTGATTTCAGGCG
3' ss Score
8.12
Exon sequences
Seq C1 exon
GTGAAGGTGGCCATTTTGAAGTACATTGAAACACTGACACTACAAATGGAGCCGCAGGATTTCGTCAACACGGGTGAAACCAGACTGGCAGTGTCGCGTATCATTACGTGGACCACCGAACCCAAGAGCTCAGATGTCAGAAAG
Seq A exon
GTACAAGATTCTGCACTTTCAGCTCGGTTTACAGTAGAAGTCAGAATGATTAACCCTCCTGTTTATTTTCCCCCAATTGCTGTTTAAAGAGAGATTTTTTTCAACACATTTCTTCAACATAATGGTTTTAATAACTCCTCTCTAATAACTGATTTATTTTATCTTTGCCCTGATGACAGTAAATAATATTAGACTAGATATTTATAACATACAAGATACTAGTATTCAGCTTAAAGTGACATTTAAAGGCTTAACTAGGTTGATTAGGCAAGTCATTTTATAACGATGGTTTGTTCTGTAGACAGTCGAAAAAAAGTATTGCTTAAGGGGGCTGATAATATTGACCTTAAAATGGTTAAAAAAAAAATTAAAAACTGCTTTTATTCTAGCTAAAATAAAACAAATAAGACTTTCTCCAGAAGAAATAATATTATCATGTGAAAAATTCATTGCTTTGTTGAACATCAATTGGGAAATATTTAAAAAAGAAAAGAAAATTCACAGGAGGGTGAATATTTTTGGCTTTGACTGTGTGTGTAGTTTGCTTTGGTGGTGTTGATTTTGTTTCGAGGCTTTATTTTGTGTGTTGATTTCAG
Seq C2 exon
GCGGCGCAGTCAGTGTTGATCTCGCTGTTCCAGCTGAACACGCCGGAGTTCACAATGCTTCTGGGCGCACTTCCTAAAACCTTTCAGGACGGAGCCACTAAATTATTGCAGAACCACTTGCGAAACACAGGCAACACAGCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000020345:ENSDART00000144557:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.007 A=NA C2=0.243
Domain overlap (PFAM):
C1:
PF123483=CLASP_N=FE(20.5=100)
A:
NA
C2:
PF123483=CLASP_N=PD(16.6=79.2)
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:
GTGAAGGTGGCCATTTTGAAGT
R:
GCGCTGTGTTGCCTGTGTTT
Band lengths:
286-882
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]