RnoINT0036794 @ rn6
Intron Retention
Gene
ENSRNOG00000009161 | Clasp2
Description
cytoplasmic linker associated protein 2 [Source:RGD Symbol;Acc:619789]
Coordinates
chr8:122139290-122140626:+
Coord C1 exon
chr8:122139290-122139313
Coord A exon
chr8:122139314-122140381
Coord C2 exon
chr8:122140382-122140626
Length
1068 bp
Sequences
Splice sites
5' ss Seq
AAGGTATAG
5' ss Score
7.98
3' ss Seq
TAGTTTTTGATATGTAACAGAAA
3' ss Score
3.6
Exon sequences
Seq C1 exon
CTCTTAGGAGACATACGGACTAAG
Seq A exon
GTATAGACACCGCTATTTTCTGACATCTTATGATATCATAGCTTGTTTTCTTTGCCTCATCAACTTAACAGATAATAGTCTATAAAAAAATTAAAGTGGAAGTAATAAAATCTTTAGCTGTCCATCTGTTTACTCTGTCACTGTGATTGTCTGTGGGGGATCCTGACTGAACATAGTGTCTTAGGGAGGTGCCCCTTGTTCACACCTGAAATGAGTCATTTATACTGGAGTCTTTCGTTGACCTGGTCCTGGAGCCCACCTGAGTTAGCGTCTGTAGGCCAGGACAAGAGTTAGTGAGAGCAGCAGCTCCCGAAAGCATTGGTCAGTTGTGTTCAGATAGTAGAGGTCTGCTCTCTGTAGATGCTTGGAACCTTTGGATTGCTGTGCTCTGTGCTCTGTGGCAGTGGCCCCACCGCTCCCTAGCCAAATCCAAGTACCAGAGTTTGCACAGTTTTTTTTTTCCAGTTTCTGCATGGAATTCTCAAAGATCTGTTTACCTCATGCTACTTTTAATATCAAAGGCATAATTGGCAGTTAAATAAAATTAAACCTTTCAGTTAAGAAATCAAAGGAACCTCAACTGCTTTCTCATACAGAATAAGCTACAGAATATGGATTACATTGGGAAAACTCTAAGGACTAGAGCCATCTTGCTTTCTAAAAACCCATACTTATCTTGAAAACATAAAGGTTGGACCAAAGGGGAGAAATGGCAAGAGAAATAGAGAAGAGGATTCTAGTACAGTTTTTATTAATTTACATTCTGTTTGTTCTTGCTTTTCCATGTAAAGGAGAAAGCACATGCCTTTGAGCATCTCCCGCTTGACATGTCTGGGCTTGCTCAAAGTCACTTCTCCTCTACTGTCATCATAGTTAAACAGTTTGTGTTCTACTAACTTCTAAAGCACTTCTTGAAGAGAAACTAAATATTGACATTTTATCTTTACAATGATTAGCAGCATGTCTTCCACTGATCTAAGACAGAAACAGTCCTTTTGTGTTAAGTAAACACTATGAAATACTCATATGTTTGTAACTACTGCTAATGTAGTTTTTGATATGTAACAG
Seq C2 exon
AAAAAACCTGCTCGAAGACGGTATGAATCATACGGAATGCACTCAGATGACGATGCCAACAGCGATGCTTCTAGTGCGTGTTCAGAACGCTCCTATAGCTCTCGAAATGGTAGTATTCCTACCTACATGAGACAGACAGAAGACGTGGCAGAAGTCCTCAACAGATGTGCTAGTTCCAATTGGTCAGAGAGGAAAGAAGGCCTCTTGGGTCTACAGAACTTGTTAAAAAACCAGAGAACACTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009161:ENSRNOT00000012545:19
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:
NO
A:
NA
C2:
PF123483=CLASP_N=PU(17.2=47.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCTTAGGAGACATACGGACTAAG
R:
CAAGTTCTGTAGACCCAAGAGGC
Band lengths:
246-1314
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]