GgaINT0002480 @ galGal3
Intron Retention
Description
NA
Coordinates
chrUn_random:38586535-38587043:+
Coord C1 exon
chrUn_random:38586535-38586676
Coord A exon
chrUn_random:38586677-38586845
Coord C2 exon
chrUn_random:38586846-38587043
Length
169 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGG
5' ss Score
9.08
3' ss Seq
ACCTCATGGGCACCTCGGTGACG
3' ss Score
-15.43
Exon sequences
Seq C1 exon
CCCACTCCCCCAAAGGTGGTGGTGGCATTTTTGGACGTGGCTGTGTATTTCTCTGCCGAGGAGTGGCTGCTGCTGGCGCGGTGGCAGCGGGAGCTGTACCAGGATGTGATGATGGATAACTACGACCTGGTGGCGTGTCTGG
Seq A exon
GTAAGGAGCAGTGCTGCGCAGCCCCCCCAGCGCCCCCGGCCCCAGGTGCACCCCTGCTCACACTGCATCCCAGTTTGCTGCCATGACTGGGGGTGGCACAGCAGCACCCGGCACAAGGCAGCCCCATGGCACTGCAGTCCCCAGCTGGCACCTCATGGGCACCTCGGTG
Seq C2 exon
ACGGTGACACCCCCAGGGCACATCCCCGGGGTCTCAGTGACATCTCTGAGGGCAGCTCAGGGGGACAAGTGATGGTGATGCCCCTGTGGTGTCTCCGGGGGGTGCTGAGGACTCTCACTTCCCCAGACTCCCTCGACACCAAATCCCCCATTGTCCACGGAATGGATCCCAGGGAGGCATCGCATGGAGGGGACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000018597:ENSGALT00000029406:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.537
Domain overlap (PFAM):
C1:
PF0135222=KRAB=WD(100=85.4)
A:
NA
C2:
PF0135222=KRAB=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGTGGCATTTTTGGACGTG
R:
GGGAGTCTGGGGAAGTGAGAG
Band lengths:
256-425
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]