GgaINT0049982 @ galGal4
Intron Retention
Gene
ENSGALG00000011645 | CLASP1
Description
cytoplasmic linker associated protein 1 [Source:HGNC Symbol;Acc:HGNC:17088]
Coordinates
chr7:25662988-25663881:-
Coord C1 exon
chr7:25663736-25663881
Coord A exon
chr7:25663124-25663735
Coord C2 exon
chr7:25662988-25663123
Length
612 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGT
5' ss Score
9.65
3' ss Seq
GACTTCATTGTGTTTTACAGACA
3' ss Score
8.46
Exon sequences
Seq C1 exon
TTGAAAAAGATCCGCTCCTTACTGTTGGCTGGAGCTGCAGAGTATGATAACTTCTTCCAACACTTACGCCTCCTGGATGGAGCATTTAAATTATCAGCTAAAGACCTGCGATCTCAGGTAGTGCGGGAAGCTTGTATCACACTGGG
Seq A exon
GTAAGTTTACTTTCCAAACGTGATTGAAATGGGTTGTAGAAACATGGAACTGATGCTGGTTAGATGCTGTTAGAACACACATACGAATTAACTAATAGATTGAAATTTTGCTACAGCCATTTAAAACCATGTTCATGTAGGCTATTAACTAACAAACCCATATTATTGAGTTTTAAATGTTAGTGATTGAGATATGCAGAAATGTGTTTTGTTCTAGCTCAGACTGAGCTTTTTCTTAATTTTTGATTGTTTATTCTTAATGAAATGATTTAAGAAAAAGAGCCTGTAGTGTTTCTAACAGTACTTTTTATGGAAATTCATGCATATGAATGCAAAACTGATCACTTCAGAGAAACTAACAAGTCCAGAGAAATACTTCTATTATTACTGTCACACTCGTTTGTTAGTAAGTATTTCTCACGGTTCAGTTGAACAAAGAGCAGGAACTTGAAAGGAACTATTTTAAAAACAAATTGTTCTTTCCTTTAGAGTTGGAGAGGTGACAGTTGTGAAGAGTGAGATATTAGATGTGCTGATCTTATATGTTCTGTACAAGTCTGACTCCCTTAATCCTCAGCACACTTACCAGTATGACTTCATTGTGTTTTACAG
Seq C2 exon
ACATTTATCATCAGTTCTGGGAAACAAGTTTGATCATGGGGCAGAAGCCATTATGCCAACAATTTTTAATCTAATTCCAAATAGTGCCAAAGTCATGGCCACTTCTGGTGTTGTAGCAGTTAGATTAATCATTCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011645:ENSGALT00000019030:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF123483=CLASP_N=FE(22.0=100)
A:
NA
C2:
PF123483=CLASP_N=FE(20.6=100)
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:
TTGAAAAAGATCCGCTCCTTACTGT
R:
ATGATTAATCTAACTGCTACAACACC
Band lengths:
278-890
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]