RnoINT0037271 @ rn6
Intron Retention
Gene
ENSRNOG00000029682 | Clic1
Description
chloride intracellular channel 1 [Source:RGD Symbol;Acc:1303043]
Coordinates
chr20:5042380-5042803:+
Coord C1 exon
chr20:5042380-5042489
Coord A exon
chr20:5042490-5042677
Coord C2 exon
chr20:5042678-5042803
Length
188 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGC
5' ss Score
6.32
3' ss Seq
ACACGTGGCCCCTTCTCCAGACG
3' ss Score
6.14
Exon sequences
Seq C1 exon
GCTGGGAGTGATGGCGCCAAGATTGGGAACTGCCCCTTCTCCCAGAGACTGTTCATGGTGCTGTGGCTCAAGGGAGTCACCTTCAACGTTACCACCGTGGACACCAAGAG
Seq A exon
GTGGGCCCCCTCCTGCCCCTTTCAACATCCCTTATGTAGACGCATGTGCACACGTATGCGCATGCGCACCCACGTGACCCCCTTCTACCTTAAACCTGTCTCGCTTGTCTGGAGCAAATCTACTTCTCCTACATCCCGAGGTCTCTGGTCCCCCCTTTTCCTTCCTTGACACGTGGCCCCTTCTCCAG
Seq C2 exon
ACGGACAGAGACGGTACAGAAGCTTTGCCCCGGTGGGCAGCTCCCGTTCCTGCTCTACGGCACCGAAGTGCACACAGATACCAACAAAATCGAGGAGTTCCTGGAGGCCGTGCTGTGCCCTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000029682:ENSRNOT00000068435:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.035
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=PU(40.8=78.4)
A:
NA
C2:
PF134171=GST_N_3=PD(57.7=95.3)
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:
GGAGTGATGGCGCCAAGATTG
R:
CACGGCCTCCAGGAACTCC
Band lengths:
218-406
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]