RnoINT0036786 @ rn6
Intron Retention
Gene
ENSRNOG00000009161 | Clasp2
Description
cytoplasmic linker associated protein 2 [Source:RGD Symbol;Acc:619789]
Coordinates
chr8:122113605-122114358:+
Coord C1 exon
chr8:122113605-122113772
Coord A exon
chr8:122113773-122114302
Coord C2 exon
chr8:122114303-122114358
Length
530 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGG
5' ss Score
7.66
3' ss Seq
ACATTCTTTTTACCTTTCAGTCG
3' ss Score
9.23
Exon sequences
Seq C1 exon
GACATACATGGGTCTTAGAAACCACTTTCCTGGTGAAGCTGAAACATTGTACAACTCCCTCGAGCCATCCTATCAGAAAAGTCTTCAAACATACTTAAAGAGTTCTGGAAGTGTAGCTTCTCTTCCACAGTCAGACAGGTCCTCGTCAAGCTCACAAGAAAGCCTCAA
Seq A exon
GTAAGGCCATATGCTTGGACGCTCATGTGTTCCTCTCCCCAACTTGCATAGCTTGCATCTACCAAGACCGTGAAAACTGGTGGCCTTGTCGTTGATTTCTTTGACCCATGGTTAGGTTAATGAGTCCCATTTTGTTTCTATGGAAGTGTAGGACCACTTGACTTCTGTGTGCTTTCGATACCATAAAATAATTGATGTAGTGAGTAGTGCGTTCCCAGCATGTGACAGTGGAGGGGTCACATGAGACAAGACTGGTGTGCCAAGCTGCCTGTATGCTGGTAAGAGCCATGCGGTCTCTGTCTTCTAAGTGAAGTACTTCCGGGTGCAACATTGAGTTGTCTGTGCTGAAGAGCAGAGTAATGTAACCTGGTCTCCATTTGTTCATTGTCAATTATTTCGTTTTATAGCTAATTCTTGAAAACAACTGTTTTTAAAGGAAAATGTCTCAACTTTCTTGACAGCTGCTATTTCGTTCTTATCAGAATGATTAACCAAGTCTTTTTACTAAAAACATTCTTTTTACCTTTCAG
Seq C2 exon
TCGTCCTTTTTCATCTAAGTGGTCAACAGCAAATCCTTCAGCTGTAGCTGGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009161:ENSRNOT00000012545:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
PF123483=CLASP_N=PD(13.3=50.9),PF123333=Ipi1_N=PD(4.0=5.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATACATGGGTCTTAGAAACCACT
R:
GCTACAGCTGAAGGATTTGCTG
Band lengths:
215-745
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]