GgaINT0007245 @ galGal3
Intron Retention
Gene
ENSGALG00000021139 | LAC_CHICK
Description
NA
Coordinates
chr15:8176224-8176727:-
Coord C1 exon
chr15:8176647-8176727
Coord A exon
chr15:8176522-8176646
Coord C2 exon
chr15:8176224-8176521
Length
125 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTC
5' ss Score
7.04
3' ss Seq
TCTCTCCTCTCCCTCTCCAGGTT
3' ss Score
13.61
Exon sequences
Seq C1 exon
TCGGCGTGGGGACACACAGCTGCTGGGATTCCGCCATGGCCTGGGCTCCTCTCCTCCTGGCGGTGCTCGCCCACACCTCAG
Seq A exon
GTACTCGTTGCGCCCGGTCGGGGACTGTGGGCACGGGGCTCTGTCCCATTGCTGCGCGGGCAGGGCTGTGCGTGCGGGGCCGTCACTGATTGCCGTTTTCTCCCCTCTCTCCTCTCCCTCTCCAG
Seq C2 exon
GTTCCCTGGTGCAGGCAGCGCTGACTCAGCCGTCCTCGGTGTCAGCGAACCCGGGAGAAACCGTCAAGATCACCTGCTCCGGGGATAGGAGCTACTATGGCTGGTACCAGCAGAAGGCACCTGGCAGTGCCCCTGTCACTCTGATCTATGACAACACCAACAGACCCTCGAACATCCCTTCACGATTCTCCGGTTCCAAATCCGGCTCCACAGCCACATTAACCATCACTGGGGTCCAAGCCGACGACGAGGCTGTCTATTACTGTGGGAGTGCAGACAGCAGCAGTACTGCTGCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021139:ENSGALT00000034023:1
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=0.185
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0768612=V-set=PU(89.6=95.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACACACAGCTGCTGGGATTC
R:
AGGGATGTTCGAGGGTCTGTT
Band lengths:
250-375
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]