GgaINT0077359 @ galGal3
Intron Retention
Gene
ENSGALG00000004730 | CLIC2
Description
NA
Coordinates
chr4:1802128-1802540:-
Coord C1 exon
chr4:1802431-1802540
Coord A exon
chr4:1802254-1802430
Coord C2 exon
chr4:1802128-1802253
Length
177 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CCTTCCTTTCTCTGCTCCAGGAA
3' ss Score
12.03
Exon sequences
Seq C1 exon
GCTGGGCTGGATGGAGAGAACATTGGGAACTGCCCCTTCTGCCAGCGCCTCTTCATGGTGCTGTGGCTCAAAGGGGTGAAGTTCAACGTCACCACAGTGGACATGACCAG
Seq A exon
GTGAGGCGCCAACACCGCGTTGGGGTCGGTCCCCGTCCTCCAGCATCACTTACACATGGATTTGAGACACCAAAAAGTTGGGGGGCACCTCCCGGAGCCCGAACCCAGCCCAGCATGCAAGCAGGGCACGCCCGGTGCGCTCACCCCAGCTTTCCTCCCTTCCTTTCTCTGCTCCAG
Seq C2 exon
GAAACCCGAAGAGCTGAAAGATTTAGCACCAGGCACCAACCCGCCCTTCCTGCTGTTCAACCGGGAGCTGAAAACTGACTTCATCAAGATCGAGGAGTTCCTGGAGCAGACCCTGTGCCCACCCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004730:ENSGALT00000007535:2
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=0.140
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=PU(41.1=81.1)
A:
NA
C2:
PF134171=GST_N_3=FE(57.5=100),PF134101=GST_C_2=PU(15.4=51.2)
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:
TGGGCTGGATGGAGAGAACAT
R:
GTGGGTGGGCACAGGGTC
Band lengths:
234-411
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]