GgaINT0112006 @ galGal3
Intron Retention
Gene
ENSGALG00000016020 | CLIC6
Description
NA
Coordinates
chr1:109442328-109443014:+
Coord C1 exon
chr1:109442328-109442437
Coord A exon
chr1:109442438-109442888
Coord C2 exon
chr1:109442889-109443014
Length
451 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
AACCTCCTTTCTACCTCTAGAAA
3' ss Score
9.42
Exon sequences
Seq C1 exon
GCTGGCAGCGATGGGGAAAGTATTGGAAACTGCCCGTTCTCGCAGCGTCTCTTTATGATCCTGTGGCTAAAGGGTGTCATATTTAATGTCACAACCGTGGACTTGAAAAG
Seq A exon
GTGAGATCATAATAGGAGTTCTCATTTTTAGAACAACTTTACCGTGATGGTGATTTAAAAGATTGAGTCTCTTTGATTTGAAATGCACACACGCAGGTTAGTGCACATTACTCACACTGCAACTTGGCGCTGTGCTAACAGGCCGTGCGCCTGGTGCCTCTTTCAGGTTCACTGGTATGAGGTGGACCAACTCCTTTGAAACGTTTGAGATTTTAATCTGTTTTCCAGTAGGCCTCTGTAACGCAAGCCTGAAATTGTAGCGTTTCAGGGTGCATTCAGATAGGGGCTGGATAATTCTGACACCACCAGCGGGAGGCAGCTGGACACATTGTGCTTTTGCAAGAGGTGTTGTAGCCTGCTACTGTGAAGTTGAAGCAGTTCATTGCACTAAGTGTCGAAATTGAAAGAGTGGTCCCCACTGTGATTAACCCAACCTCCTTTCTACCTCTAG
Seq C2 exon
AAAACCTGCTGACCTGCAGAACCTGGCCCCGGGGACGAACCCACCCTTCATGACGTTTGATGGCGAAGTCAAAACTGACGTCAATAAGATTGAGGAGTTCTTGGAAGAAAAGCTAGCGCCGCCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016020:ENSGALT00000025807:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.108 A=NA C2=0.302
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=PU(41.1=81.1)
A:
NA
C2:
PF134171=GST_N_3=FE(57.5=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:
CTGGCAGCGATGGGGAAAGTA
R:
CGGCGCTAGCTTTTCTTCCAA
Band lengths:
230-681
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]