GgaINT1009600 @ galGal4
Intron Retention
Gene
ENSGALG00000001262 | CLIC4
Description
chloride intracellular channel 4 [Source:HGNC Symbol;Acc:HGNC:13518]
Coordinates
chr23:2462195-2463181:-
Coord C1 exon
chr23:2463056-2463181
Coord A exon
chr23:2462302-2463055
Coord C2 exon
chr23:2462195-2462301
Length
754 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
TTCTGCTTCTTGCTTTCCAGATA
3' ss Score
10.7
Exon sequences
Seq C1 exon
AAAGCCAGCAGACCTTCAAAATTTGGCTCCAGGCACTCATCCACCCTTTATAACTTACAATGGTGAAGTGAAAACAGATGTGAACAAGATTGAAGAGTTCCTGGAAGAAGTTTTGGCTCCACCAAA
Seq A exon
GTAAGTGTTCAAATGAGAACATGTCACCTTGCATTGGATGCAGTGTCCTTAGAGGGACACCTGCTCTAATTAGGAACTTCCTTGGCATCCACACATTGCAAATCAGGCTTTGGGAATAGTTTGGAGTTCTTTGACTCTGTAAGCAGAAGGATTGTGGGTGATCACACAGAACTGATGACTCCAAAATGCAAATTGGAAGTAATTTCCTAACATCCAATTCCTTTACGTTGGCCATGGCGGTGAGTCCCAGAGCTGAGAGTGCTTAGTATTTGGGGGCTATGGATGAAAATACTGAGCACTTCTTGAGATAATTAGATTACACAGCACAAGCATGTGAAATGTGGGCTCTAAACCATAGCCACGGGGCAGAGGCAAAGTGCAGGCACTGCCTTTAGTGTGGCAAAGCCTTCCTTTCTGTTAAAAGATCCGGAGCCCTTGATTGACTGGGACTGCAGATGTTAACTTGGGAAGAATCTCCTGCAAACAGAGGCAGGGGTGCTCCGTTCTTTGCCTCTTTGCTCTGCTCCGCTGCGTCACAGCTCTGCTGAAGGAGCCTCCTCGTGTTGCCATGTGCTGTTGCAAACACTGCTGGAGGCAAATGCTTGGCTCAGAAGGCAGCAGAGTGCTTTTGTTTGCCTCTGAGATGTTGGGTGTGAAACTCTCCCCCTCGATGGCAGCATGGGCTATTTCTTACAAAATGCCATTTCCTTTGAGTTGATAGATGGTGACCATCCTTCTGCTTCTTGCTTTCCAG
Seq C2 exon
ATACCTGAAACTTTCTCCAAAGCACCCCGAGTCCTACACTGCTGGAATGGATATTTTTGCCAAATTTTCTGCATTTATCAAAAATTCCAGACCGGAGGCTAACGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001262:ENSGALT00000001916:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.047 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=FE(57.5=100),PF134101=GST_C_2=PU(13.6=44.2)
A:
NA
C2:
PF134171=GST_N_3=PD(0.1=0.0),PF134101=GST_C_2=FE(25.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCAGCAGACCTTCAAAATTTGG
R:
CTTCGTTAGCCTCCGGTCTGG
Band lengths:
230-984
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]