GgaINT0127865 @ galGal3
Intron Retention
Gene
ENSGALG00000004333 | E1BY40_CHICK
Description
NA
Coordinates
chr18:7969165-7969848:-
Coord C1 exon
chr18:7969699-7969848
Coord A exon
chr18:7969245-7969698
Coord C2 exon
chr18:7969165-7969244
Length
454 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATG
5' ss Score
8.99
3' ss Seq
GCTTTGTTTGTTTCTTTCAGCTT
3' ss Score
9.85
Exon sequences
Seq C1 exon
GTGTATAGGCACCGTTCAACACCTGAAGAGTAAATTCGGCAGAGGGTACTTCTTGGAAATGAAATTGAAGGACACAGCAGATGTACAGCAGGTGGAGTACCTGCAGAGGCAGGTCCTGCACATCTTCCCAAACGCAAACCGTCAGGAAAG
Seq A exon
GTAATGCTGAGCAGATGGGCAAAGAGCCCACATTCGTGCAAGCCTCCAATTTCACAATAGCTCTTTCCTATTGGGTAAGGAAATCCGTAGTACAAATGTTTGCAAAAAAAAATACAAGCAACTTTAAAAACGAAGCAAGCATTTTGCAAGCCAGCAAAGCCTCAGTGCTGCTGCTGATGCTGGCTGGTGCTGGCACAGCTGATGCACACCCACATTTCTGCATAACCTGACAGCTTCCTTCTCTTGAAACGGTGAATTCTGAGTCACCGAGTCCCTGCCCTTAGCTGGAAGCTCATGGTGGGAGGGTAGAACACCCATGTTGTCCTGTGTGGCAATGGCCCAACAGAAGGTGTGGAGCAGTCTTCAGAAAACAAATTTAAATCCATTCCTTTGGATATTCGTATTTTTGCTTTGTTTCACCTGGAGCTGATTTTGCTTTGTTTGTTTCTTTCAG
Seq C2 exon
CTTTGCTTCTATCTTGGCATATAAAATCCCTAGAGAAGACGTACAGTCGCTTTCACATTGTTTTTCCAAGCTGGAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004333:ENSGALT00000006907:35
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
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
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTATAGGCACCGTTCAACACC
R:
TCCAGCTTGGAAAAACAATGTGA
Band lengths:
224-678
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]