GgaINT0077360 @ galGal4
Intron Retention
Gene
ENSGALG00000004730 | CLIC2
Description
chloride intracellular channel protein 2 [Source:RefSeq peptide;Acc:NP_001026285]
Coordinates
chr4:1803392-1804093:-
Coord C1 exon
chr4:1803968-1804093
Coord A exon
chr4:1803499-1803967
Coord C2 exon
chr4:1803392-1803498
Length
469 bp
Sequences
Splice sites
5' ss Seq
CACGTGAGT
5' ss Score
9.3
3' ss Seq
ACCCCGGCATCTCCTTCCAGGTA
3' ss Score
9.82
Exon sequences
Seq C1 exon
GAAACCCGAAGAGCTGAAAGATTTAGCACCAGGCACCAACCCGCCCTTCCTGCTGTTCAACCGGGAGCTGAAAACTGACTTCATCAAGATCGAGGAGTTCCTGGAGCAGACCCTGTGCCCACCCAC
Seq A exon
GTGAGTGCAAACCCGCGTTGCGCAGGGCTGGCTGGATGGGGAAACTGAGGCAGGAGAGCGTCTGGGGTGGGGGACAGCACGGGGCAGGGAACAACAGGAGGAAGAGCAGCAGAGGTGGGGTGAGGTTTCCCTGGGCGATGGTGGTTTTGCAGCTGGCGATGGCAATAGCTGCCGGCGTGGGGACAGGAGGTGCCCCCACCTCTGCCTGCTCGTTGCCAAAGCAAACACCCTACACAAAAGAGGAAGCACTGAGTGCATTCATCGTCATCCTCCCCGCGTGTGTCAGCCTTGTGCAGCACCCTGGGACGGCGTCTCCGAGCCCCGCAGTTTCTGCCCTATGGCGAACAGCTGTGCTAATGCAGCAGCTGCAGTCGTTTAAGGCGCTGCAGCTGCTCGGCCCCCTCCTGTGCCACCCGTGGGTACCACGATCCATGAGATGTCCCCGGCTGACCCCGGCATCTCCTTCCAG
Seq C2 exon
GTACCCTCATCTGAGCCCCAAATATAAGGAGTCCTTCGACGTGGGCAGTGACATCTTCGCCAAGTTCTCGGCGTACATCAAGAACTCACGCAAGGAAGCAAATAGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004730:ENSGALT00000007535:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.140 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=FE(57.5=100),PF134101=GST_C_2=PU(15.4=51.2)
A:
NA
C2:
PF134171=GST_N_3=PD(0.1=0.0),PF134101=GST_C_2=FE(25.2=100)
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:
GAAACCCGAAGAGCTGAAAGA
R:
TGCTATTTGCTTCCTTGCGTGA
Band lengths:
233-702
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]