GgaINT0099679 @ galGal4
Intron Retention
Gene
ENSGALG00000011995 | CLASP2
Description
cytoplasmic linker associated protein 2 [Source:RefSeq peptide;Acc:NP_001170856]
Coordinates
chr2:45307127-45308717:-
Coord C1 exon
chr2:45308550-45308717
Coord A exon
chr2:45307183-45308549
Coord C2 exon
chr2:45307127-45307182
Length
1367 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGG
5' ss Score
7.66
3' ss Seq
TATTGGATTTTGTCTTTCAGTCG
3' ss Score
7.53
Exon sequences
Seq C1 exon
GGCTTATTTGGGTCTTAGAAATCACTTTCCTAGTGAAGCAGAGACTTTGTACAATTCCCTTGAGCCACCTTATCAAAGAAGCCTCCAGACATACTTGAAGAATTCTGGCAGTATAGCATCTCTCCCTCAGTCGGACAGGTCATCTTCTAGCTCACAGGAGAGCCTCAA
Seq A exon
GTAAGGGTCACTTACCTACTTCTCAATCTGAACAAATTATTTTGTTTTTTACAAAAATGTTATTCGGATATGATTAATTACTCTTGTTTAAGTTAATCTGTCTGGCTTACCTGAAAATTAAAAATGTTGTGAATGACTTGCTAGTAATGTTAAAAACTAAGTTACATAGAAATTAAGATTTTAAAATACCCTTAAACTGCCAAGTGTTACTTCCTGTACTGCAGGGTATGCAAGTTTCCAGGTATTTGAACTTAAATCCTACAGAAAGGAAGGGGTGGAACAATAAACAGAAGTAGTTACGATGCAGGAAATGTATTTTTAATCAAGTTTTGAGTACTTTTGTGTTTGGATAGATGCTATTTTCCCTGTGTTTTTAGCTTCTAGCATTATTAACAGGTTCTCCCTGCATTTACTAACCTAGGAAATAGGGGCGTGCTTTTACTGTGTCTAATTCTCCATGATTTTTGACTTCACCGTACTTACAGGTCTCCTAGATTATTGAATAAAAATAATTGTAAAGGAGATGTATGGGATGAAAAAAAATATGATGACTTGTCCCTGCAAAACAAGCTCTATTTGAAACTGCTTAAATGAAATGTCATTTGCAGTAGATTGTGTTAGTGATGAAGTTGTGACAGTTGTCTAGGACTTCTTGGAGTTCATTTTAAGATCAGGCACCCAAGACTTGCAACAGAATGCTTCCAAAATGCCAGGTATTAATATTAGGAAGTCACTGTATATTGTTGTTGATGGTTAGCTGCAGGTACGTAATTCTCTGTGAGAAGTTACCTAATAATTCTGACATCTGCATTATCCTTGAGTCCCAGAGCAAGCAGCTAAGGTAAATACACAGTATTATGCACCTTCTCTCAGCCTGGCCTTTTTTGTATTAAAAATACAAAGACTTCCCCTCTTTCATCCATTTTTCCTTGTTACTGCAGACACCATTTAATTTGTTATATATACCAGTCATTTTTCTTCAGCTCCCACTCTTTTTACATGGCAGCTGATTTTGAAGATAAGCTCTGTGGTTAAATAAAACCTTGCAGTGTCAGCCTTAAATATTTCTGTGACCTGAGCTTTGTGTCATCAAAGGAGAAGTGCTCTGTGATGAAGATGTAATTTCATAAAATATAAAAGATTCACTAATAAAAATGGTGGTGTTTTCAGTCTGTATTAACTGTTTTTCTCCAAAAATATTCAGAGAAAGTAGAAAAGGAGAGAAAAAAAAGAGAGTTGGTTTTTTTTTTTCTTTTCCTTTTGCTCTCTCATTTTGTTGTGAATTAATTGCCTTTTGGATCTGATGCATGGGATGTTTTATTTATAAAAGCCCTTACTTAATGGATTTATTGGATTTTGTCTTTCAG
Seq C2 exon
TCGTCCTCTATCTTCTAAATGGTCTGCAGCCAGCCCAGCCAGCTTTGCAGGCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011995:ENSGALT00000019569:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.494 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF123483=CLASP_N=PD(13.3=50.9),PF123333=Ipi1_N=PD(10.0=14.0)
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:
GGCTTATTTGGGTCTTAGAAATCACT
R:
CAAAGCTGGCTGGGCTGG
Band lengths:
215-1582
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]