GgaINT0039934 @ galGal3
Intron Retention
Description
NA
Coordinates
chr8:27452347-27452924:-
Coord C1 exon
chr8:27452809-27452924
Coord A exon
chr8:27452480-27452808
Coord C2 exon
chr8:27452347-27452479
Length
329 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAG
5' ss Score
8.68
3' ss Seq
TAACACTTGATTTTCTGAAGCCC
3' ss Score
3.34
Exon sequences
Seq C1 exon
ACGTCATCTGCTCCATCACCTTTGGCAATTGGTTTGAGTACCATGATAAGGACTTCCAAAACTTGCTGCAGCTGATGGATGAGACTGCTACCTTCTATGGGAAGATAATGAACCAG
Seq A exon
GTACAGCCCCCTGTCCTCAGCACAGACAGTGTGCACTTTTGCAAGGCCACCTCTTCTTCTCTGGAGTCAAGCTCAAAACTTTGAAAGCTCTTCCACAGTGGGGGTTAGAGATCAGGAAGGCTGAGAAACAAATCAAATTCCCCACTTGAGCTGCTGCTGTGTCAGTCTGTGAGCTCTGAATGGACATTAGTTTGGCACATCTGTTGGAGGGATGGGGATGGGGATGCAGAGTGCGAGCAGCTTCTGGCAAAACCCTTGGGGCAGGACTGAGTCTGATTTTTGAGGAAGTTCTTGCTTTTCACATGGCACTAACACTTGATTTTCTGAAG
Seq C2 exon
CCCAATGGCAGTGACTTCTGTGGGGATAACCTGGTGTTGTGCACTCTTGACCTGTTTTTTGCTGGGACTGAAACCACCTCTACAACCATCCGCTGGGCCCTGCTGTTTATGGCCATATATCCAGAAATTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020625:ENSGALT00000017754:1
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=0.000
Domain overlap (PFAM):
C1:
PF0006717=p450=PU(20.0=85.7)
A:
NA
C2:
PF0006717=p450=FE(73.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGTCATCTGCTCCATCACCT
R:
CTTGAATTTCTGGATATATGGCCAT
Band lengths:
249-578
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]