RnoINT0037278 @ rn6
Intron Retention
Gene
ENSRNOG00000000728 | Clic2
Description
chloride intracellular channel 2 [Source:RGD Symbol;Acc:1306580]
Coordinates
chr20:308761-309693:+
Coord C1 exon
chr20:308761-308867
Coord A exon
chr20:308868-309511
Coord C2 exon
chr20:309512-309693
Length
644 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGA
5' ss Score
5.73
3' ss Seq
TTATTACTTTACTGTCTTAGATT
3' ss Score
7.95
Exon sequences
Seq C1 exon
GTATCCTCATCTGAGTCCCAAGTACAAGGAATCTTTCGATGTGGGCTGTAATCTCTTTGCCAAATTTTCTGCGTACATTAAGAATACACAAAAGGAAGCAAATAAGA
Seq A exon
GTAAGAATGCTTTTTTTTTTAGGGCTGTATTTTTCTCAGTTACTTGTTCCTTCTTCCATTGTCACTCAACTCAATTAGAATTTTCAAAAATAGTGTTTTTTGGGGAACAAACAACTTCCTTCCTCATTTTCTGTTCTGCCCTCTGAAATTCCCTTGTATTAAGTTTTATGGCGTTTATAATCCAAAATTCAATAAATCAATTACCAGCACAGTTCAAATAGAGCATTTGTGGACCAGCTGTGAACCAACTGCAGAACTGTGCCTTTGTAAATTTGCAGGACCTAACGTCTCCCATAAACATTCTTGAATAGGATTGTTTTCTTCTGAGTCATAAAAACATAGTCTCCTCTTTGACTTTCTGACTCTTCTGTGTTGGATGATATATACTGATTTTTCTTTCTTTGCCTTTCCTACCAATATATATCTCTTTAAAAAATGTCTAAGATATATCTACTCACCCTTTGAGCTGATACTGTCTCATCAGTGAATTAGTGAAAAGGAGTATGTAAACCCTGGAAGCTTATTAAGAATGTATTTAGTTATTAAGATTTATAATAATTTTAATTGATTATTTTTTAAATTAATTTTTAAATAATTAATATTTATAATGATTTATAATTAACCTTATTACTTTACTGTCTTAG
Seq C2 exon
ATTTTGAAAAATCTCTGCTTAGAGAATTTAAACGTTTGGATGACTACTTAAATACCCCACTTCTGGATGAAATTGATCCTGACAGCACCGAGGAACGTACACTTTCCAGAAGACTGTTCTTGGATGGGGATCAACTAACACTGGCTGACTGTAGTTTGTTGCCCAAACTGAACATTATTAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000728:ENSRNOT00000000955:4
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=0.033
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=PD(3.9=8.1),PF134101=GST_C_2=FE(25.2=100)
A:
NA
C2:
PF134101=GST_C_2=FE(42.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTATCCTCATCTGAGTCCCAAGT
R:
AATAATGTTCAGTTTGGGCAACA
Band lengths:
286-930
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]