GgaINT0112008 @ galGal3
Intron Retention
Gene
ENSGALG00000016020 | CLIC6
Description
NA
Coordinates
chr1:109444088-109444756:+
Coord C1 exon
chr1:109444088-109444194
Coord A exon
chr1:109444195-109444574
Coord C2 exon
chr1:109444575-109444756
Length
380 bp
Sequences
Splice sites
5' ss Seq
AAAGTAGGT
5' ss Score
6.84
3' ss Seq
TTTTTATTGTCTTAACCTAGATC
3' ss Score
7.84
Exon sequences
Seq C1 exon
GTATCCCAAACTCGCACCGAAGCACCCCGAGTCCAACTCTGCAGGAAACGATGTGTTTGCAAAATTCTCTGCATTCATCAAGAACCCAAGAAAAGATGCTAATGAAA
Seq A exon
GTAGGTGCTACGATCCTTCCACCTGCCCTAATAGTTAGTGAAATAAGTTAGTCATGCAACTCCCGTGTCCTCCGGCTCCACCTCCACCGTTACACACCAGCCCCATCCCCTACGAACACCCCATCCAACCTTGCTGAGCCCTGCTGTTTCTGGTAACACAGACCCAGTTTGGTTTTTCTCAGAACCCCCTTTAGCTACTTAGAGCCCTTATCCCAGCATTACATTTTAAGCTTAGGATAAAGGAATTGCGGGAGTTAGCATGGCTGGGTATCTGCGAGCTGGGCTGGTGCCAGGAGACAGGATGCAGTAGGCGCCTTTCTGCTTGGTGTCAGAGAGACCTTGGTACGGGCTTGAACGATCTTTTTATTGTCTTAACCTAG
Seq C2 exon
ATCTGGAAAAATCTTTGCTTAAAGCCCTGAGGAAGCTGGACAACTATTTAAATAGCCCCTTGCCTGATGAAATTGATGCTTACAGCACTGAGGAGATCACTGTGTCCTGCCGCAAATTCCTGGATGGAGATGAGCTCACCTTAGCGGATTGCAACCTCCTACCAAAGCTCCACATAATTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016020:ENSGALT00000025807:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.216 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=PD(0.1=0.0),PF134101=GST_C_2=PU(21.3=62.2)
A:
NA
C2:
PF134101=GST_C_2=FE(55.6=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:
GTATCCCAAACTCGCACCGAA
R:
AATTATGTGGAGCTTTGGTAGGAGG
Band lengths:
286-666
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]