GgaINT0099680 @ galGal4
Intron Retention
Gene
ENSGALG00000011995 | CLASP2
Description
cytoplasmic linker associated protein 2 [Source:RefSeq peptide;Acc:NP_001170856]
Coordinates
chr2:45305853-45307182:-
Coord C1 exon
chr2:45307127-45307182
Coord A exon
chr2:45306024-45307126
Coord C2 exon
chr2:45305853-45306023
Length
1103 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
GTTGTTGTTGTTGTTACTAGTTT
3' ss Score
5.25
Exon sequences
Seq C1 exon
TCGTCCTCTATCTTCTAAATGGTCTGCAGCCAGCCCAGCCAGCTTTGCAGGCAGAG
Seq A exon
GTGAGCTAATGCTATCTTTTGCACAGTATTTATTCCTTAAAATTCTTTGAATTAAAAGATTTAAATGGAACTTAAAATTTTATTTTGTTAAGTATTTACCCTGTTTCACAATTGAATAATGTTATGTCTCTGTAAGCTGCACCTGCTGCTATGTTTTCCTCTTACATAGCTTGGATTTTACGTATTTTCAGTTGCGAGTGAAAGACAATTTGCTATGTATTGGAATTGTTCTTTGGTTGTTTATCTTGGAGCTTTGTCATGGGACAGTCATTCTCAAAGAAGCATTGCGTTCTGTGGTCCACATGCGATAATTGGGCTTATCGCGTTTGCAAGTGAAAGATTCCTTGCACCTTTCATCTGTTCCAAAGTAGCTGCTGCTCTGTGTTGGAGAGAAAACAAATACAGCACAATTCAGACAGTTCAATTTTGTCACCAGTTTTCAGAGATGAATCTCTTCTTTCTCCTTTCATGTAATGTCTTTGTAACTCCTTACAAAGAAATCACTGAACTCCCTTTTACAAGCCTCTTGTAATTAATTGGTGGTGCTTGTTTGGTTGGTATTGAAACTGTGAAGGAAGAGTCAATGAAAATTTAGTTAATAGTGAACATTTAGCATGTCAGAGGAAATGAATGTAAAAAATATTTTACAGAAGTTGAAACCAAAACCAATTCAAGGTATTCAGTCAGCTTGCCCAAAGCTTTACCTCAGCTGAAGTGTGGAAATACTATCTTCTCTCCGTATCGCAAGTTGTGCTGTGAATTCATTATCTTTTGAAGCATTCAGTGATGTAATAAACCCCATAAACATTCCTAATTACGCAGTTTGTAGAAGAATGGGAGCACAGAGCATTAAATGGTAACATTTCATATGGAATGGCAATAAATAGTACTGTAACATGAACTGATCTTTATCTGAATTTCATGGCAACGTGTCCAACATTATTTAATGTCCTTAAAATACTGTGTTTATATTGACCTCATTTGTGTGACATATGTACTTTTTGCAGGTTTGCTGCAGCAAAAAATGAACACATTAACCTTGCAAATATAATTCATTCTATTCACGACTAACAACTATTTGTTGTTGTTGTTGTTGTTACTAG
Seq C2 exon
TTTCGGGCAGCAGCAAGAGTGTTCCAAGCCCAGGAACTCTGCAAAGGTCTCGCAGTGACATTGATGTTAATGCTGCTGCAGGGGCAAAGGCCCGCCATGCTTCTGGACAGACAGCTGGAGGTGGGCGCTTGTCAGCAGCTGGTCTGCCTCCAGGATCTTATGCTTCACTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011995:ENSGALT00000019569:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTCCTCTATCTTCTAAATGGTCTGC
R:
GTGAAGCATAAGATCCTGGAGGC
Band lengths:
223-1326
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]