GgaINT0046839 @ galGal3
Intron Retention
Gene
ENSGALG00000009301 | E1BRV4_CHICK
Description
NA
Coordinates
chr7:17983639-17984020:+
Coord C1 exon
chr7:17983639-17983857
Coord A exon
chr7:17983858-17983975
Coord C2 exon
chr7:17983976-17984020
Length
118 bp
Sequences
Splice sites
5' ss Seq
GTGGTAGGC
5' ss Score
5.59
3' ss Seq
TTTTGTTTTTTCCTTTCAAGGAT
3' ss Score
11.18
Exon sequences
Seq C1 exon
TGGGCAGCACGTCCCTGGGACAGCCCCGTGGTTCATCCCACCCCTCTCACTGATGCCATTTTGTCACTCACAGCCGGGCCGGCCCTGTGCTACGAGCACGAGACGCGCCTGGTCGATGACCTGTTCCGGGAATACAGCAAGGTGGTGCGCCCCGTGGAGAATCACCGCGATGCCGTCGTCGTCACCGTCGGGCTGCAGCTCATTCAGCTCATCAATGTG
Seq A exon
GTAGGCAGTGGGGAGGCGGAACCACCACATCATGTGCTATTGTCACATGCTCTCCTCCTTTAATCCCAATGCTTGCTACTTGTGTCTCCTTTCTCTCTTTTTGTTTTTTCCTTTCAAG
Seq C2 exon
GATGAAGTAAATCAGATTGTAACAACCAATGTGCGCCTGAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009301:ENSGALT00000022743:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=PU(18.8=53.4)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(6.7=100)
Main Inclusion Isoform:
NA
Other Inclusion 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:
GACAGCCCCGTGGTTCATC
R:
TTCAGGCGCACATTGGTTGTT
Band lengths:
242-360
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]