GgaINT0016667 @ galGal3
Intron Retention
Gene
ENSGALG00000003377 | C5orf25
Description
NA
Coordinates
chr13:10501431-10502081:-
Coord C1 exon
chr13:10501885-10502081
Coord A exon
chr13:10501652-10501884
Coord C2 exon
chr13:10501431-10501651
Length
233 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
CTGCCTTACCTTGCACACAGCGG
3' ss Score
7.52
Exon sequences
Seq C1 exon
GCATCACTAAGAGGTCAGGGAAGGCCAAAAGGACTTCTTTGGAAGCAGGTGGCTCACAAGAAGCAATCCGACAAGTGACCTCAGCCAGTACTAAGGCTGACAGCATGGTCTGGCTAAACAAACTGCGCTATTTCAGGAGGAGTGGAGTCCAGCACCTCTTCTTTCATGGTGCAACATCTGACAGGGAAACACCACAG
Seq A exon
GTAAATGGGTTCAGAGCAGCTACTGCCCAGCCAGGTCCACTCAGAGCAGTTCTTGTGGCAGAGGATGGAGCACGGGCTGCCCCCTGCTCCACTTCCCCTTTCAGGGGAAGCTTTGCCAAGCCATTGGGATCTCTGGTTACTGCAGTTCTCTTAATGGTGGGCCTCAAATCACAGCTAGATCCCCGTGTACCATGGGGACCCAGTTTTCACCCACTGCCTTACCTTGCACACAG
Seq C2 exon
CGGAAACCCGAGCTCATCCCCAGCAGTAAGATGAGCATGGTACGCACCACCATGGAGGAGAACTTCCTGGAGGGAACCTTGCATTTCCTCAGTGACTTCATCTCCCGCCAGCACTGCCCTCCCAAAGAAATCGTCTCCCATCTGATCAGACACATCCTGTTGAACTCCCACCAGGAGGAGATCCTCCAGAACACCTACACGCTGCTGATGAAGATCCAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003377:ENSGALT00000005337:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.065 A=NA C2=0.149
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
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGGCTAAACAAACTGCGCT
R:
GGATCTTCATCAGCAGCGTGT
Band lengths:
306-539
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]