RnoINT0028186 @ rn6
Intron Retention
Gene
ENSRNOG00000008031 | Cacna2d4
Description
calcium voltage-gated channel auxiliary subunit alpha2delta 4 [Source:RGD Symbol;Acc:1562038]
Coordinates
chr4:151336952-151337388:+
Coord C1 exon
chr4:151336952-151337032
Coord A exon
chr4:151337033-151337313
Coord C2 exon
chr4:151337314-151337388
Length
281 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
TCAACCCTTGACCTTGGCAGCTC
3' ss Score
5.11
Exon sequences
Seq C1 exon
CGATCCCATGGCATTCTCCTGGGTGTGGTGGGCTCTGACGTGACCCTAAGAGAGCTCATGAAGCTGGCACCCCGATATAAG
Seq A exon
GTGAGCCTGAGTGGGGTCCCTGGGGATGGTGTCTAAGCCACAGCTCTCCACTGCTGAGACAAAAGTCAGCTTAAAGGGAGGAGAGGGCTATTTGGGCTTCACAGTTTCACAGTTTCATGGCTCTGTCCACGGTTGCTTGACCAGAGACCAGTAGGTGGAAGCGTGACACTGGCTCACCATGATTCCTATTTAAAACTCGCTGCTGTTTTCAACGATCTATTCCCTCCTCCCCTGCCTCACCATCCAACATGTCTAATGCCCTCAACCCTTGACCTTGGCAG
Seq C2 exon
CTCGGGGTACATGGCTATGCCTTTTTGAACACTAACAATGGCTACATCCTCTCTCATCCTGACCTCCGACCTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008031:ENSRNOT00000010746:15
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:
PF0274313=Cache_1=FE(27.7=100)
A:
NA
C2:
PF0274313=Cache_1=FE(25.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGATCCCATGGCATTCTCCTG
R:
CAAAGGTCGGAGGTCAGGATG
Band lengths:
156-437
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]