RnoINT0028209 @ rn6
Intron Retention
Gene
ENSRNOG00000008031 | Cacna2d4
Description
calcium voltage-gated channel auxiliary subunit alpha2delta 4 [Source:RGD Symbol;Acc:1562038]
Coordinates
chr4:151408065-151408478:+
Coord C1 exon
chr4:151408065-151408177
Coord A exon
chr4:151408178-151408395
Coord C2 exon
chr4:151408396-151408478
Length
218 bp
Sequences
Splice sites
5' ss Seq
AATATATCC
5' ss Score
-6.21
3' ss Seq
CCTTGACTTGAGCTCTGCACATA
3' ss Score
-6.99
Exon sequences
Seq C1 exon
GACATTCGTGATGCAACAGATTCCCAGCAGCAACCTGCTCCTGCTAGTGACAGACCGTACCTGTGACTGCAGCGCCTACTCTCCCATCCTCCAGGAGGCCACAGAAGTCAAAT
Seq A exon
ATATCCTTTCCACCCTCCGAGGGGCAAGGGGTGGCTGAGAGATCACGGAGCAGCTCAGATTTGGGGTGCAGAGCCCAGATTCTCACTGTCCTCCCTTGCTTACAGCACCATGATGGGGCGGGGGTGGGGAGCTACCCATCCTGCAGCTGCTTGCAGGGCCGCTGACCTCACAGACCTCTGGAACTGTGGAGAGGTGTGCCTTGACTTGAGCTCTGCAC
Seq C2 exon
ATAACGCCTCCGTCAAGTGCAACAGGATGCGCTCCCAGAAGCCCCGGAGACGACCAGGCTCCTGCCATGCCTTCCATCCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008031:ENSRNOT00000010746:37
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=0.286
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:
GACATTCGTGATGCAACAGATTCC
R:
CTCGGGATGGAAGGCATGG
Band lengths:
196-414
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]