GgaINT0077361 @ galGal3
Intron Retention
Gene
ENSGALG00000004730 | CLIC2
Description
NA
Coordinates
chr4:1801246-1801658:-
Coord C1 exon
chr4:1801552-1801658
Coord A exon
chr4:1801428-1801551
Coord C2 exon
chr4:1801246-1801427
Length
124 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGG
5' ss Score
4.69
3' ss Seq
GCTTTTCCCTGCCCACCCAGACC
3' ss Score
7.52
Exon sequences
Seq C1 exon
GTACCCTCATCTGAGCCCCAAATATAAGGAGTCCTTCGACGTGGGCAGTGACATCTTCGCCAAGTTCTCGGCGTACATCAAGAACTCACGCAAGGAAGCAAATAGCA
Seq A exon
GTAAGGAGCAGGGGCTGGGGGCACGGCTAGGGCTTGGCTCCCTTAGGCACAGCCTGGCACAGGCTCGGGGGGGCGGTGAGGACCCGGCCCCTGCATGATGCCATGCTTTTCCCTGCCCACCCAG
Seq C2 exon
ACCTGGAGAAGGCTCTGCTGCGGGAGTTTCAGAGGCTGGATCAGTACCTCACCACCCCACTGCCCGAGGAGATCGACCAGGACAGCGTGGAGGACATCACCATCTCCAAGAGGAAATTCCTGGATGGGGACCACCTGACTCTGGCTGACTGCAACCTGCTGCCCAAGCTGCACATCATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004730:ENSGALT00000007535:4
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:
PF134171=GST_N_3=PD(0.1=0.0),PF134101=GST_C_2=FE(25.2=100)
A:
NA
C2:
PF134101=GST_C_2=FE(42.0=100),PF075506=DUF1533=PU(74.0=60.7)
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:
GCAGTGACATCTTCGCCAAGT
R:
TTGATGATGTGCAGCTTGGGC
Band lengths:
244-368
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]