GgaINT0032801 @ galGal3
Intron Retention
Gene
ENSGALG00000007899 | F1NJ26_CHICK
Description
NA
Coordinates
chr9:16707426-16707833:+
Coord C1 exon
chr9:16707426-16707541
Coord A exon
chr9:16707542-16707632
Coord C2 exon
chr9:16707633-16707833
Length
91 bp
Sequences
Splice sites
5' ss Seq
CGGGTATCG
5' ss Score
4.71
3' ss Seq
TGTCCCACGTGTCCCAACAGAAA
3' ss Score
9.34
Exon sequences
Seq C1 exon
CTCATTGGCATACAATGCACAGGAGATCAACATGCACCTGAAGGAGGAGAGTGACCCAGAGACCGAAAAGAATTACCGGGTGGAGTGGATCATCATTGACCCCGAAGGCTTCACGG
Seq A exon
GTATCGCTGGAGCTCCCTGCTGTGTCCCGTGGCAGTGGGACACCCTGTAAGGGGCTCAGGGTCTCCCATGCTGTCCCACGTGTCCCAACAG
Seq C2 exon
AAAATGGCGAATGGGAAATCATCCACCGCCCGGCCCGCAAGAACATCCACCCCAGCTACCCCACTGAGAGCAGCGAGCACCAGGACATCACCTTCTACCTCATCATCAAGCGCAAGCCACTCTTCTACGTCATCAACATCGTCACACCCTGCGTCCTCATTGCCTTCATGGCCATCCTTGTCTTCTACCTGCCTGCTGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007899:ENSGALT00000012824:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.025 A=NA C2=0.015
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(17.4=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PD(17.4=57.4),PF0293211=Neur_chan_memb=PU(9.0=30.9),PF0000317=7tm_3=PU(0.1=0.0)
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:
TACCGGGTGGAGTGGATCATC
R:
GTAGAAGAGTGGCTTGCGCTT
Band lengths:
171-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]