GgaINT0127841 @ galGal3
Intron Retention
Gene
ENSGALG00000004333 | E1BY40_CHICK
Description
NA
Coordinates
chr18:7981460-7981922:-
Coord C1 exon
chr18:7981812-7981922
Coord A exon
chr18:7981636-7981811
Coord C2 exon
chr18:7981460-7981635
Length
176 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGC
5' ss Score
9.44
3' ss Seq
ACTGCTGTGGGCTTTTGTAGGGT
3' ss Score
7.66
Exon sequences
Seq C1 exon
ACCTGTCCTTTGACATCTACGAGGGGCAGATCACAGCTCTGCTGGGGCACAGCGGCACCGGGAAGACAACACTGATGAACATCCTCTGTGGGCTGTGTCCCCCAACAGACG
Seq A exon
GTGAGCCAGGAGCTTTGTGTCTAAAACCATTGGCCCCCTGATTATTTCTGTGAATAACATCTCCAAGTCCTCTCCTTGCCCCTTTTTTTGACTCCCTGTGCCTGCATTCTGGCTGGCTGTAAAAAAAAAAAAAAAAACACCCACATCTTACCATGGACTGCTGTGGGCTTTTGTAG
Seq C2 exon
GGTTTGTCTCTGTCTATGGGCACAGAGTCTCCGAAATCGACGAGATGCTCGAAGTGCGGCGCATCGCAGGCGTGTGCCCACAGTCCGACATCCACTTCGATATATTGACGGTGGAGGAGAACCTCTCCCTCTTCGCTGCCATTAAAGGAATACCTCAGAATGACTTGATACAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004333:ENSGALT00000006907:11
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:
PF0000522=ABC_tran=FE(25.2=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(39.5=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:
TTGACATCTACGAGGGGCAGA
R:
TAATGGCAGCGAAGAGGGAGA
Band lengths:
246-422
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]