RnoINT0036762 @ rn6
Intron Retention
Gene
ENSRNOG00000002376 | Clasp1
Description
cytoplasmic linker associated protein 1 [Source:RGD Symbol;Acc:1310970]
Coordinates
chr13:34488987-34490938:+
Coord C1 exon
chr13:34488987-34489157
Coord A exon
chr13:34489158-34490887
Coord C2 exon
chr13:34490888-34490938
Length
1730 bp
Sequences
Splice sites
5' ss Seq
TAGGTAACC
5' ss Score
6.66
3' ss Seq
ACCCTTTTCCGAACTTCTAGAGT
3' ss Score
7.54
Exon sequences
Seq C1 exon
GCTCTACAGTTAGTACCAAGTCTATGTCGACGACAGGGTCTCTCCAGCGATCTCGAAGTGATATTGATGTGAACGCAGCAGCCAGTGCCAAATCCAAAGTCTCCTCATCCTCAGGTTCCACCGCCTTCAGCTCTGCAGCAGCGTTGCCTCCAGGATCCTATGCGTCATTAG
Seq A exon
GTAACCGGGCTCCCCCTGTCCTGCTGTCCCCTTGACCCTGGCCTCTGAGCAGAGTGCAGAGCTTACACAGAGCTTCCCTCCATAGCTGAGGGCAGCTTTCCTCTTGAGGGCATTCCAAAGCATAAGTAACTGTACCCAAAGATAGCTCCCAGCTATCCTTTGTCCAGTGCCATGTCCAGTGTCCCTTTTCCCTGCAGTGTCAGCCTGTTCCATAAGGACATGTGCTTGCAGGCCATGTGGTCCTCCTGTCCTTTTTCCTATAGCAGTTCCTGCCCGTACCCAAGCCACTGGCTGTATTTCCAGCCCTGACTTGGCCCTCTCCTACTGGGGGAGCTGAGCCAGGTGGCTCAGTGGGCCTTTAGGGTTCCTGTGGTTGAGAGTCTCTTAGAATGAGGGTGGCAGGAAGATTCTAGACGAATGGAATGAACCTTTAACCAACTTAAGCACAGCTGTGCAGGTGTTCTACCCTACATGCTGCCTGAGGAGAGCACACCCCCACACTGCCCCCCAAAAAGTGTTTCTAATTACTTTCCAAACTTTTGGTATCTAAGATAATGAGAGGTGCATTACTCAGCCTGTCCAGACAACACTGAGCACCTTTTCTGTGTCAGGCTAGTGGTGTATTTCATTGTATTCTTGTAAAAACCAAGTAAGTCATTCACCCCCAAATCTGAGAACTTAGCTTAAATCATTACACCAAAACCAGGTTACTCACATACCCACTAGGGAATTTCAAGGTCGCTACAAAGCTAATTTTCTGAAGTGCTTTGAGATTGGAAGCATGCAGACAGGACAGTGCAGAGAAGGTACCACTTGTTCACTGTCACCATGGCAGGCTGTGCAAGCTCTGAGTCTGTTTCTCTGCCAGTGACCTCATGGAAATGTAGCCATAGTGACTCAGACACATGATCGAAGATTGGTGAGATTACATGAGGTCGTTTGTAAATGATCGCCCTGCAAGGTTGCAGAAAGAGTTGAAATAAGAATGCTATTAACCTGGGAGATGTGTGTCCTGGAACCATATGTTCAGGCAGCCCGAGTGTGAAGGTGTTGCTTTGAACTTTTTGGTCAAGGAAGAAGCCGCAGATGTTCCTTCCCATGGTGAGCAAGTTAAATCTAAGTATTTACCAGGGTGTCAGTTCTTTTGATCCACTTTTACATTTGGCTTTTGTTTATTTAGTTTTGTTTTTGTTTTGGAGATGGACCCACTGTATATATAGCCCTGGATAGCCTGGTACTCACTATGTAGACCAGGCTGGCCTCTAACTCAGAGATGGCTTGCCTCTGTTTCCCACAAGATATGCCTGGCTCCCGTTTAGTATTTTTAGTTAACATTTGCTTGACTGTTTTCATGTCAGCCTTTAGAGAATATAGGATTTACTTGTGTACATCTGCAGTGTTTAGTTCAGGCCTCAGTAGATTCCCTCAGTGCTAATGAAAACCCCAGGAGTTGGGTCTGGTGACAGACAAGTGAACCTTCAGAATTGCTGAGACGTTCTTTTAGCACAGTTTCCTCTCCAGACAAGACTGCAGCACTGAATATTCTCTCCCTTCCCCATAAGAATTCTACCTTTAGTTCCCTTGGTTTTTGCCCACCCCACATGCTACTTCAGCAAGAAGTGAAGTAGCACACAGTTCTGAGACTGCACTCAGGCCCCACTTAGATTGACAAGACACTTGACTTGTAAACGTATAGCATTAAAGCTGATAACCCTTTTCCGAACTTCTAG
Seq C2 exon
AGTCCAGACACATGAGGGAAGACTTGGAGTACGTAGGCCTGGATGCAGGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002376:ENSRNOT00000061513:22
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:
GCTCTACAGTTAGTACCAAGTCT
R:
CATCCAGGCCTACGTACTCCA
Band lengths:
216-1946
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]