GgaINT0112007 @ galGal4
Intron Retention
Gene
ENSGALG00000016020 | CLIC6
Description
chloride intracellular channel 6 [Source:HGNC Symbol;Acc:HGNC:2065]
Coordinates
chr1:105366187-105367492:+
Coord C1 exon
chr1:105366187-105366312
Coord A exon
chr1:105366313-105367385
Coord C2 exon
chr1:105367386-105367492
Length
1073 bp
Sequences
Splice sites
5' ss Seq
CCGGTACAG
5' ss Score
5.65
3' ss Seq
TGATTCTTTCAACTCCTCAGGTA
3' ss Score
8.12
Exon sequences
Seq C1 exon
AAAACCTGCTGACCTGCAGAACCTGGCCCCGGGGACGAACCCACCCTTCATGACGTTTGATGGCGAAGTCAAAACTGACGTCAATAAGATTGAGGAGTTCTTGGAAGAAAAGCTAGCGCCGCCCCG
Seq A exon
GTACAGCATTCCTGTCCCCTCCTCCTGCTCATAGCCCCAAGTTGTGAGAAAATGTCTGTGGGAGCAGTGCCTCCAACCTGGCTGCAAGCTGGGGAGGCCTGGCAGTGTGTGGCATGTGTCCTGGGGTAGCCCTGACTGCTGGCTGTGCTCTTCCCACTGCCTTTGCCTTCACCTCAAGTTCATAGTTGCACCACTACAATCATTTTCAAGGCATGAAATCCACCCTCCTGCAACAAGTATATGCAGAAACCTGCATACCGCTGCAGAAACCTGACCTCTTTTCCTCTGCTTGTGTTTATTTGAGGTTTCCCTCCTCACACTGTACAAATAATTAGGGGAAACAGGTAGGTAGAAGGAAGCAGCAGTGGAAGCCTCCACTACTGCTGGAGTGCTGAGGCACAGACCATTGCAGCTTATTTTGAGTGGCTAGGTGGGATAATCTCAGCGTGTGCTGAGGGCTGGGTTTCAGACCTGTCCTTCCCACCCCAGGAGCAATCCTCACCTCTCCCCACATCCTCTGCCAGCAGCGTCATTCCCTCCACGCAGGCACCTTTTCCCCCCCAGGACAGCTGCCCCCTCGAGCAGCCAAACTTGACTCAAGCTGTGTGAGCCGCTATGTGAGCAGCTACTTTTTCCCTCCTCTCTGCTGTGGCAGCAGCAGCGGCTGTCCTGCCCACTCTGAGCTTGCTCGTGCATGTGCAGGGCAGGCGAGCAGGCCGGGAGGAGGAGCAGTTGGTGCTAACGGGGACTTTCCCTCTGCTCCTCCTCACGGCTCTGCTCAGCCTCACCTCCAATAGAGGCAGCCTTGAAGAGGCACTTGGTTGCTTGGGCAGTGGTTGCAGCACGAACAGTCATCTTCCATCTGCCTCAGGAGGGGGAGGTAAGCCACGTGGTTTGGGTATGGGATGAAATTCACACTTACAGACTGGTTTTTAGCCTAGGATGGTTCCCTTTGAAAGCCCTGAGTAGCCATATATTGTAACACTTCAGTTTCAGTGATATGTATGGAAGTAATTAGCGAAGGTGAAAATAAAGGCTAATCCGTAACTTTTTTGATTCTTTCAACTCCTCAG
Seq C2 exon
GTATCCCAAACTCGCACCGAAGCACCCCGAGTCCAACTCTGCAGGAAACGATGTGTTTGCAAAATTCTCTGCATTCATCAAGAACCCAAGAAAAGATGCTAATGAAA
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=0.163 A=NA C2=0.216
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=FE(57.5=100)
A:
NA
C2:
PF134171=GST_N_3=PD(0.1=0.0),PF134101=GST_C_2=PU(20.9=62.2)
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:
TGACCTGCAGAACCTGGCC
R:
TCATTAGCATCTTTTCTTGGGTTCT
Band lengths:
222-1295
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]