RnoINT0037272 @ rn6
Intron Retention
Gene
ENSRNOG00000029682 | Clic1
Description
chloride intracellular channel 1 [Source:RGD Symbol;Acc:1303043]
Coordinates
chr20:5042678-5043045:+
Coord C1 exon
chr20:5042678-5042803
Coord A exon
chr20:5042804-5042938
Coord C2 exon
chr20:5042939-5043045
Length
135 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGG
5' ss Score
10.88
3' ss Seq
CTTATCCCTCTGCCTTCCAGGTA
3' ss Score
10.93
Exon sequences
Seq C1 exon
ACGGACAGAGACGGTACAGAAGCTTTGCCCCGGTGGGCAGCTCCCGTTCCTGCTCTACGGCACCGAAGTGCACACAGATACCAACAAAATCGAGGAGTTCCTGGAGGCCGTGCTGTGCCCTCCCAG
Seq A exon
GTACGGGGGACACTCGGAAAGAAAAGGGGAACTGGGAGGCTTTTCGGAACAAAAGTTGAAGAGGGGAGGCAGGTGGCCAGCCTTAGGGCAGAGTCCCCCCCAGAAAGGACTTCACCTTATCCCTCTGCCTTCCAG
Seq C2 exon
GTACCCAAAGTTGGCTGCTCTGAACCCCGAATCCAACACCTCGGGGCTGGACATATTTGCCAAGTTTTCTGCCTACATCAAGAACTCAAACCCGGCCCTCAATGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000029682:ENSRNOT00000068435:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.035 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=PD(57.7=95.3)
A:
NA
C2:
PF134101=GST_C_2=PU(5.6=13.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGGACAGAGACGGTACAGAA
R:
ATTGAGGGCCGGGTTTGAGTT
Band lengths:
229-364
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]