RnoINT0028214 @ rn6
Intron Retention
Gene
ENSRNOG00000008031 | Cacna2d4
Description
calcium voltage-gated channel auxiliary subunit alpha2delta 4 [Source:RGD Symbol;Acc:1562038]
Coordinates
chr4:151328161-151328815:+
Coord C1 exon
chr4:151328161-151328221
Coord A exon
chr4:151328222-151328664
Coord C2 exon
chr4:151328665-151328815
Length
443 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAAC
5' ss Score
4.14
3' ss Seq
TGCCTTTCTTTCTGCTAAAGGTA
3' ss Score
8.43
Exon sequences
Seq C1 exon
GGATAAAGTGGACACCTGATGAAAATGGAGTCATCGCCTTCGACTGCAGAAACCGTGGCTG
Seq A exon
GTAAACACTCCCAGAGGAGGGGTACCATGTCCCAGCTTTTCTCTTCCATCCTTTGGGCTTTGCTGGCTACAGTCCTCGCTCCCTCCCCCCTTATCTCCAACTCAGACCTCCCTCCAGTACCTGAAGCTGTCCCCAGATCAGCCTGCCTCCAGCTCTGTCCTTGCCAAACCCTTTTCCTGGTAGGTCAGCAGTGTATTTGAGCGCCCTCCTTTCCTCCTGCCAGGCCCTCAGAGACCGTGGCTGTCCTCTGCCAAAAATGAGAACGCTCACTTCCAACCTCAGCACCCCAGCAGCCTCCGTGTCCAGGGGTCCAGCACAAAGTGAAGGCATTGGCCTTCACTTAGGGAAACCCATGGGCCAAACCAAATAAATGGACTGCAGGTCCCCAGCCGGGTGGCAGTATAGCCTTGGCTTCCTTCCCGTTGCCTTTCTTTCTGCTAAAG
Seq C2 exon
GTACATACAAGCCGCCACTTCTCCCAAGGACATCGTCATCCTGGTGGACATGAGCGGCAGCATGAAGGGGCTGAGGATGGCCATTGCCAAACACACCGTCACAACCATATTGGACACCCTGGGGGAGAACGACTTCGTGAACATCATCGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008031:ENSRNOT00000010746:7
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=0.000
Domain overlap (PFAM):
C1:
PF083996=VWA_N=PD(2.6=14.3)
A:
NA
C2:
PF135191=VWA_2=PU(22.2=78.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTGGACACCTGATGAAAATGGA
R:
CGCGATGATGTTCACGAAGTC
Band lengths:
206-649
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]