RnoALTA0009229-2/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000029682 | Clic1
Description
chloride intracellular channel 1 [Source:RGD Symbol;Acc:1303043]
Coordinates
chr20:5042939-5045456:+
Coord C1 exon
chr20:5042939-5043045
Coord A exon
chr20:5045275-5045280
Coord C2 exon
chr20:5045281-5045456
Length
6 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
TAGCTTCCTCTCTCTCACAGACC
3' ss Score
9.98
Exon sequences
Seq C1 exon
GTACCCAAAGTTGGCTGCTCTGAACCCCGAATCCAACACCTCGGGGCTGGACATATTTGCCAAGTTTTCTGCCTACATCAAGAACTCAAACCCGGCCCTCAATGACA
Seq A exon
ACCTAG
Seq C2 exon
AGAAGGGACTCCTGAAAGCCCTGAAGGTTCTAGACAATTACTTGACATCCCCCCTCCCGGAAGAAGTGGATGAAACCAGCGCCGAGGATGAGGGCATCTCTCAGAGGAAGTTTCTGGATGGCAATGAGCTCACCCTGGCTGACTGCAACCTGCTGCCAAAGCTTCACATAGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000029682-12-8,12-7-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.197
Domain overlap (PFAM):
C1:
PF134101=GST_C_2=PU(5.6=13.5)
A:
NA
C2:
PF134101=GST_C_2=FE(66.7=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGGCTGGACATATTTGCCAA
R:
ACCTTCAGGGCTTTCAGGAGT
Band lengths:
93-99
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]