RnoINT0028172 @ rn6
Intron Retention
Gene
ENSRNOG00000031287 | Cacna2d3
Description
calcium voltage-gated channel auxiliary subunit alpha2delta 3 [Source:RGD Symbol;Acc:631361]
Coordinates
chr16:4874414-4874813:-
Coord C1 exon
chr16:4874699-4874813
Coord A exon
chr16:4874495-4874698
Coord C2 exon
chr16:4874414-4874494
Length
204 bp
Sequences
Splice sites
5' ss Seq
TATATCCTT
5' ss Score
-24.41
3' ss Seq
GCCTTAACTACAGTCAACATAAT
3' ss Score
-11.57
Exon sequences
Seq C1 exon
GTCCTTTGTCATCCAGCAAATCCCAAGTAGCAATCTGTTCATGGTGGTGGTGGACAGTAGCTGTCTCTGTGAGTCTGTGGCTCCTATCACCATGGCACCCATTGAAATCAGGTAT
Seq A exon
ATCCTTTTGTGTGTGGGTCTAGCTACTGGCAATGGGGAAGCAACTGTAAGGCAAGTGGCTGGAGACACGTCAGAGAGGTAAAGGTTACATCCCTTACCTGTATGTAGAGGGAAGTGGTTAAGCTACCTTAGTGTCAAGTTTTGACCCCTGAAATTCAGAGTGAGAGAAGTCATTGTCAGAGCAAGCCTTAACTACAGTCAACAT
Seq C2 exon
AATGAATCCCTTAAGTGTGAACGGTTAAAGGCTCAGAAGATCAGACGACGTCCGGAATCCTGCCACGGCTTCCATCCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000031287:ENSRNOT00000048043:35
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=0.028
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GTCCTTTGTCATCCAGCAAATCC
R:
CTCAGGATGGAAGCCGTGG
Band lengths:
196-400
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]