GgaINT0127838 @ galGal3
Intron Retention
Gene
ENSGALG00000004333 | E1BY40_CHICK
Description
NA
Coordinates
chr18:7983805-7984422:-
Coord C1 exon
chr18:7984275-7984422
Coord A exon
chr18:7983974-7984274
Coord C2 exon
chr18:7983805-7983973
Length
301 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGT
5' ss Score
10.65
3' ss Seq
TTTTTCCCTTTATTACTCAGGGG
3' ss Score
9.02
Exon sequences
Seq C1 exon
GTGATGCATTTAGAAGATTATGAAGACGGAGCAACGTTTTCCAATCTAAATCACGGTCCTTACCCACTCTTTATCTCCTTAATTCTACTGGTGCTGGACAGCATATTTTACCTGCTGGCAGCTGTCTACCTCGATCAAGTTATTCCAG
Seq A exon
GTACGTGCATGCAGGAAGCTGGGCTGTGCTAAGGGTGTGAATTGCTGCAGCCCCAAGCCCAGCTGAAGGCTGATAGAACCAGGTGGTGCCCTCTTGAAGCTGGGAGAATTGGGGTTCTTTTGGTGATGGAAATGATAAGTGCGGATCGTGTGTGCATGGCCTGCAGAATCCCTCCTCAATTAGGACGTGGGCTGGCTCCCAGACTTCCAGCAGGGCAGCTCTTAGCTTTTATAGCCACAACCCGTAGGCTGAAGTGTATTTCACGTTACTGTTAAGTTTTCTTTTTCCCTTTATTACTCAG
Seq C2 exon
GGGAGTTCGGACTGCGCCGCTCATCGTTTTTCTTTATGAAGCCCTCATTTTGGTCAAAGCGCAGGAAGAATTACGAGGAGTTGTATGAGAGCAGCATCAATGGCAACCTCAGCTGCAGTGAGATGGTCGAGCCCGTGCCATCCGAGTTCCAGGGGAAGGAAGCCATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004333:ENSGALT00000006907:8
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:
PF126982=ABC2_membrane_3=PD(10.8=84.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCATTTAGAAGATTATGAAGACGGA
R:
GATGGCTTCCTTCCCCTGGAA
Band lengths:
311-612
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]