GgaINT0032802 @ galGal3
Intron Retention
Gene
ENSGALG00000007899 | F1NJ26_CHICK
Description
NA
Coordinates
chr9:16707633-16708192:+
Coord C1 exon
chr9:16707633-16707833
Coord A exon
chr9:16707834-16708080
Coord C2 exon
chr9:16708081-16708192
Length
247 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
CGGCTCCCTCTGCTCTCCAGGTG
3' ss Score
9.37
Exon sequences
Seq C1 exon
AAAATGGCGAATGGGAAATCATCCACCGCCCGGCCCGCAAGAACATCCACCCCAGCTACCCCACTGAGAGCAGCGAGCACCAGGACATCACCTTCTACCTCATCATCAAGCGCAAGCCACTCTTCTACGTCATCAACATCGTCACACCCTGCGTCCTCATTGCCTTCATGGCCATCCTTGTCTTCTACCTGCCTGCTGACA
Seq A exon
GTGAGTGGCACCTGCACTGGGCATGGGGACACCCATGTCCCATACCTATCCTGGAACATGTGGATACCCCAGTATCCAACACGGCACTAGGACAACCCTGTGCAGGACACCATCCAACCACCCCTGAGCAGGGCATGGGATAACCCAAATGGAACCCTAGGCTACCCCTAGAGCATAAAACCCCATATGGAGCACTGTAGGGTGGGACACTGGGAGGGGACATGGGACGGCTCCCTCTGCTCTCCAG
Seq C2 exon
GTGGTGAGAAGATGACTCTGGTGATCTCAGTGCTCCTGGCCCAGTCTGTCTTCCTCCTGCTGGTCTCCCAGCGCCTGCCTGCCACCTCCCACGCCATCCCCCTCATTGGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007899:ENSGALT00000012824:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.015 A=NA C2=0.000
Domain overlap (PFAM):
C1:
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)
A:
NA
C2:
PF0293211=Neur_chan_memb=FE(15.8=100),PF0000317=7tm_3=PU(33.6=97.4)
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:
GAAATCATCCACCGCCCGG
R:
CAATGAGGGGGATGGCGTG
Band lengths:
295-542
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]