GgaINT0032715 @ galGal3
Intron Retention
Gene
ENSGALG00000007906 | F1NJ22_CHICK
Description
NA
Coordinates
chr9:16709968-16710402:+
Coord C1 exon
chr9:16709968-16710022
Coord A exon
chr9:16710023-16710262
Coord C2 exon
chr9:16710263-16710402
Length
240 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
CTGGGGTGCCCCCCCACCAGGCA
3' ss Score
5.86
Exon sequences
Seq C1 exon
ATGCGCTGCTCCGATCTCCTCCTCCTCTTCCTCCTCGCCTTCTGTGTCCTGCCAG
Seq A exon
GTAAGGTGCACCCACCCCAGGGAGAGGGGAGGCTGAAGGGTCCCTGGTGCCCCCTTCCACCACCTTTTCCCTGGGGTTTTATCACCCATGGTTGCACAGCATTGCGCACTGTCCCCATGCCCTGCTTGCACACCACCAAGGCTTTACGTGCATCCCCTCCCCCCCCCCCCCAGCTATATCAGTATTGCCCCAGGGACAGCACTAAGCTTCCCGTCCCCTCCTGGGGTGCCCCCCCACCAG
Seq C2 exon
GCATAAGCTGCAGGAACCAGGAGGAGAAGCTGCTCCAGGACCTGATGACCAACTATAATCGTCACCTGCGCCCAGCGCTGCGTGGGGACCAGGTCATTGACGTCACCCTCAAACTCACCCTCACCAACCTCATCTCCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007906:ENSGALT00000012833:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0293118=Neur_chan_LBD=PU(17.8=83.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCTCCGATCTCCTCCTCC
R:
AGGAGATGAGGTTGGTGAGGG
Band lengths:
188-428
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]