DreALTA0008041-3/3 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000078722 | clip1a
Description
CAP-GLY domain containing linker protein 1a [Source:ZFIN;Acc:ZDB-GENE-060526-282]
Coordinates
chr5:66543622-66549953:-
Coord C1 exon
chr5:66549893-66549953
Coord A exon
chr5:66543727-66544049
Coord C2 exon
chr5:66543622-66543726
Length
323 bp
Sequences
Splice sites
5' ss Seq
GAGGTATTT
5' ss Score
7.63
3' ss Seq
TTCTCTCTTTATGTGGTCAGTAT
3' ss Score
4.5
Exon sequences
Seq C1 exon
GAAGGTGGAGGACCTGCAGTTTCGAGTGGAGGAGGCTTGCATTACCAAAGGAGATTTGGAG
Seq A exon
TATTTTTTTAACCATTATTTTGTTACCGTCTTAACCCTTATTCACATTAATGCTGCATGGTGTCTGGTGTTTTTACTCGTTTGGCCATCGTCAGCATGTTTACACGCATTGACCCGGTGATCTGCTACAAAATCCACACCTTTTCCCTCATTGATCTGACTAGCATTTTATCACAACGTTTTCCTTCTGCTTTTTTTTTTTATTTTGAATTCTGCACAACGTCCCCACACCTTCCCCTGCTCACCCCTCATCTCTCTGCATCAGGCTGGCATGTGATGGTGGCACTGGTTGTGTTTTTTCCTCTACCCTTTCTGTACTAACAG
Seq C2 exon
ACGCAGACGCAGCTGGAGCATGCCCTCCTTAAGGAGCTTGAACAGAGTCTTCTCTTTGAAAAGACCAAAGCTGAGAAGCTCCAGAGGGAGTTAGAAGACTCTAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078722-9-11,9-10,9-9-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.200
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]