RnoINT0036791 @ rn6
Intron Retention
Gene
ENSRNOG00000009161 | Clasp2
Description
cytoplasmic linker associated protein 2 [Source:RGD Symbol;Acc:619789]
Coordinates
chr8:122129371-122131159:+
Coord C1 exon
chr8:122129371-122129541
Coord A exon
chr8:122129542-122131051
Coord C2 exon
chr8:122131052-122131159
Length
1510 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
CTGCTGCTATTCCCTCTCAGCCC
3' ss Score
7.57
Exon sequences
Seq C1 exon
CTGGCAGCAGATCTGGGTCTCCGGGAAGAGTTCTAACCACAACAGCCCTCTCTACTGTGAGCTCTGGTGCTCAACGAATCCTGGTCAATTCAGCTTCAGCACAGAAGAGAAGCAAGATACCAAGGAGCCAGGGCTGCAGCAGAGAGGCCAGCCCATCTAGGCTTTCAGTGG
Seq A exon
GTAAGTCTCTGCAGGGCCACCTTTGGCATCCTGGAAGTTCAAGGAGAACTAATGTCTGTCTGGGTTGCTGAAGTACAGGGTATGAGTTGGGTCTTGAACGTGTGAGGACTTTGAAAGGGGCCGAGCATTGTCAAGCCCAAGGTCACTGTTTTGTCTCATCCGCACCTTAATTCTCATCCGCACCTTAATTCTCAGGCCTTTCAATTGTCTTAGTGCTACCAGCTTCGTCCTTACTCTGAGGCTGAAACATGGCTGAGTGGGAAGAACACTTGCTGCTTCCGCAGATCCTCTGAGTTGGCTCCCACATCCATAGTACACAGCGGGCAGCTGACAGCCACCTGCAGCTCCAGTTCGCAGGGCTTTGGCACCATCTGTCCTCTGCAGGCACATGACTCTCTCACATGTGCCATACACTTCCACAGACATGCGTACACACGTGAATCATCTTTTTGAAAGCTGTAAATGGTTGGTGCCTGAGCGTACGATCTAATCGGGGCAAAGGCAGATGATGGTGACTTTAAGTCAGCCTGGGCAACATAGCAAGACTGCAACATACGAAGACTTCTCTAAAGTCCTAAGAGTAAAGTTTGCTCATAGGACACAGCCTGCCGTGACCCCGCCTCCTCTCACAGTACACTGTGTACTGCATACTGCAGTGTGGAAGGGACTGCCTCACTGTACAGAAGCAAGCTCTGCTCGAGTCCTGCCAGTGGCTCACGTCAGCTGCTCTGCGTCTGCAGTGAGGCATCCCTAGATGGTGTTCTCCCAACAATTTCTGACTTTTTCTCTATTTTGAAAACTTATAAAAGACCTCATTCCCTTCTCATATCTTTGTGACATTGTCCTCTCAGGAAGCCTCACGACCTCTGGAGCATCCTCTTTTGTGGGCCGTGGCCTGTGCTCTAGCCCAGCTGTCACTTGGAGACTCCTTTTCACGGCTTTCCTGGGTGGGATGGACTCATTTTTCTTGATCTACTACTCACTTGCTTTGCCTCTTCCGCATTCTCAGACTCCTCAGAAATGGTTGAGGACTCCAGGTCTTAGAGCTGCAGAAGAATGTCACCATTCAGTTCAGTGCTCGGAACTTCCTGTAGGCCTACAGACGTGGGGCGGGTGCCTTGGTAACACCAAGGGTGTCTGGGCCTTTCATCCTCACGACTTTGCTTCCTTTTGCTTCCCAGACATCATTAGATTCTCTATTATATCTTCAGTCCACAGTCTCAGATCCTTTTGGCTTTTTAAAATCCGTATTTGTATTTTGTGTTTTTATTTATAAGGAGTAAATAAGACATGAATTGAAAGCTTCATAGTTTGAAACTAGCCTGGGCTCCATGGTTCCATAGACTCAGTCTGAAAGGAGAAAAGAATAAAAGAGCAATTCATTTTCAACCCCAATACAAACAGACTTGTTATTAATCAGTTCCTTAAAAAAAGAAAGCTAAAATTTTGAAAAGCTTAAATTCTGCCTTCTGTTTTCTCTTGCTGTGCTGCTGCTGCTATTCCCTCTCAG
Seq C2 exon
CCCGGAGCAGCCGGATTCCTCGGCCGAGTGTGAGTCAAGGCTGTAGCCGGGAAGCTAGCCGAGAGAGCAGCAGGGACACAAGTCCGGTCCGCTCTTTCCAGCCCCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009161:ENSRNOT00000012545:16
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:
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:
CTGGCAGCAGATCTGGGTCTC
R:
CAAGGGGCTGGAAAGAGCG
Band lengths:
279-1789
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]