GgaINT0127837 @ galGal3
Intron Retention
Gene
ENSGALG00000004333 | E1BY40_CHICK
Description
NA
Coordinates
chr18:7984275-7984912:-
Coord C1 exon
chr18:7984724-7984912
Coord A exon
chr18:7984423-7984723
Coord C2 exon
chr18:7984275-7984422
Length
301 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
CTCTCTGTGTTTGTTGGCAGGTG
3' ss Score
10.76
Exon sequences
Seq C1 exon
GTATTCTTTGCCCTGATGCTGACGCCCCTCTTTAAGAAGTCAAAGCACGTGGGTATCGTTGAGTTCCTGGCCACGCTGGCTTTTGGGTTTGTGGGGCTGAACATCGTCCTGCTGGAAGACTTCCCCAAATCCTTCGTGTGGCTCTTCAGCCCTTTGTGCCAATGCAGTTTCCTGATCGGCATCGCGCAG
Seq A exon
GTAGGGATCCTCCTGCTGGGAGCCATAGAGATCATTTAAAATCATTTAATTATTTTTTTAATTAAACTAACGGTGTGGAGAAGTACCTATCTTCACAACTCCCCGTGGTGCTTTTAATACCGAGATAAAAAATAATGTCCAAAGGAAAAAACATGGTAAAAGTGAAACACAAGTGCAGCACCATGCAGCTTTACCCTTCGTGTTTGCTGCTGTGTTGGTCACTCTTTAGTTTTGTTCTGCTGCATGGTTTGCCATGCTGGTATGATGCAGATGTGCAGCACCTCTCTGTGTTTGTTGGCAG
Seq C2 exon
GTGATGCATTTAGAAGATTATGAAGACGGAGCAACGTTTTCCAATCTAAATCACGGTCCTTACCCACTCTTTATCTCCTTAATTCTACTGGTGCTGGACAGCATATTTTACCTGCTGGCAGCTGTCTACCTCGATCAAGTTATTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004333:ENSGALT00000006907:7
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(15.9=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=PD(10.8=84.0)
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:
TTCTTTGCCCTGATGCTGACG
R:
CTGGAATAACTTGATCGAGGTAGACA
Band lengths:
334-635
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]