GgaINT0127854 @ galGal3
Intron Retention
Gene
ENSGALG00000004333 | E1BY40_CHICK
Description
NA
Coordinates
chr18:7973268-7973647:-
Coord C1 exon
chr18:7973534-7973647
Coord A exon
chr18:7973406-7973533
Coord C2 exon
chr18:7973268-7973405
Length
128 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
CCTTTTTTTTTATTGTACAGACA
3' ss Score
8.5
Exon sequences
Seq C1 exon
CTTTTCTGCCTCATTGGCTATGTTCCATCAGTGGTGCTGTTCACCTATGTGGTCTCCTTCACATTTAAGAAAGTCCAAAACACGAAAGAGTTTTGGTCATTTATATACTCAGTG
Seq A exon
GTGAGTAACTCAGCTTTGGTGAAGTGAGAATTAAAATAAATAAATAAGTAAATGAGGCAGCTTATCCCTTGAGACTTGGAATTGAACGAAAATGCCTTTTTTTTCCTCCCTTTTTTTTTATTGTACAG
Seq C2 exon
ACAGCTTTGCTGTGTATGGTTGTCACCGAAGTGGCCTTTTTCCTGGACTTTGACACGGTGACCACCGCCCTGCATTGTGTCTTCTGCACCTTCGTTCCCATCTATCCCCTCATTGGCTGTCTGATCTGTTTCATTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004333:ENSGALT00000006907:24
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=FE(10.0=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(12.2=100)
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:
CCTCATTGGCTATGTTCCATCAGT
R:
TAATGAAACAGATCAGACAGCCA
Band lengths:
242-370
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]