GgaINT0138725 @ galGal3
Intron Retention
Gene
ENSGALG00000021273 | E1C8L4_CHICK
Description
NA
Coordinates
chr24:5535415-5535827:-
Coord C1 exon
chr24:5535668-5535827
Coord A exon
chr24:5535588-5535667
Coord C2 exon
chr24:5535415-5535587
Length
80 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGT
5' ss Score
7.83
3' ss Seq
CTGCCTCCCCCCGTGCCCAGGAA
3' ss Score
10.34
Exon sequences
Seq C1 exon
CCTGTGGGCAGAGGATTTCGGGCCGAATCATCGGAGGGAAGGAAACCTCGGTGAGCAAATGGCCCTGGCAGGTCAGCGTGCAGTACGGGCCCGTCCACATCTGTGGTGGTACCATCATCGATGCGCAGTGGGTGCTCACCGCCGCTCACTGCTTCTTCAT
Seq A exon
GTGAGTGCTGCTCTGCAGCTCACAGCCGTGGCGCTGGGCATGGCTGTGTGTCTCACCCCACTGCCTCCCCCCGTGCCCAG
Seq C2 exon
GAACAGCATGAAGATCCTCGACGACTGGAAGGTGTACGGCGGGGTGTCGGACCTCAAGCAGCCCATGGAGGGCATCCCAGTCTCCCAGGTCATCATCAACTCCAACTACAGTGATGACCACGACGACTATGACATTGCTCTCATGAAGCTCTCCCGGCCGCTGACGCTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021273:ENSGALT00000011876:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF154941=SRCR_2=PD(5.5=9.3),PF0008921=Trypsin=PU(19.2=81.5)
A:
NA
C2:
PF0008921=Trypsin=FE(25.3=100)
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:
AGGATTTCGGGCCGAATCATC
R:
CCTTCCAGTCGTCGAGGATCT
Band lengths:
181-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]