RnoINT0028192 @ rn6
Intron Retention
Gene
ENSRNOG00000008031 | Cacna2d4
Description
calcium voltage-gated channel auxiliary subunit alpha2delta 4 [Source:RGD Symbol;Acc:1562038]
Coordinates
chr4:151360016-151361705:+
Coord C1 exon
chr4:151360016-151360083
Coord A exon
chr4:151360084-151361659
Coord C2 exon
chr4:151361660-151361705
Length
1576 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
AGTGTGATCTCTGCTTTCAGGCC
3' ss Score
8.91
Exon sequences
Seq C1 exon
CTTGGGAGTGGTGCTCACCAGGGGCCATGGAGAATACATCCTCCTGGGGAACACGTCTGTGGAGGAAG
Seq A exon
GTAGGTCAAGCCATGTGCTGACCGTGATGTGATGTGTGGTGTGGATGTGCTATTCCAGGTCGCTGAGCAGGATCAACCTAGGACAGAACCAGGGTGAGCATTCCCACCAGGTGGGATGGCAAAGGAAGACCTTACCCTACCCCAGATGCCCATGACCTGGTCACCTTGAGAGAGTCGGCCTCCTTGCCAGGCAGGATGTCCGTGGGAGCCCTGAGAGATGGGTCACATCAATGTCTGTTCATTCTTCTTTCCTGTCCCTGGGGTACATCCCATGACCCATCATTCTACCATCATGCTAATCACAGTCCCCTCAACCCTAGACAATCGCAGTGGCCTCCAACTGTTCACCTCACCCCTGTCTCTGACTTCATCCGCAGAATCTTTCTAGAAATGCCCTCTCTCCTGATACTTTTCCGGCCATCTCTCCCAGGTTCACTCCCTTAAGCTTCCTGTCCCATCGAGAGATGTGCAGAAGTTCTGACTCTTGGAAGCTGTGGATGTGACTTTCTCTGGCCCAGACTCGTGGGGTCTTTTGAAGGAACAGATGGCTGAGGACTAAAGAGGTTGCTGGGCAGTTAGGAGCATTGCTGCTCTTGCAGAGGACCTGGGTTCCCAGCACCCACATGGGTAGCTCACAATTATCTGGAACTTCAGTCCCAGGGGATCTGATGCCATCTTCAGGCCTCATGCACGCAGGGAAAACATTCAGACACATAAAACAATAACAATTTTTAATTGATAGGTGAGGGAGGGGCTCTGCAGTGACAGGCAAAAATGAGCTTACCACGTAGTAGGGATGAGGGCAGGGGACTGGCTAACAGAAGCTGGGAGAGGTTTCCCTGAAATCTCTCTTCTTGGACCCTCTCTCCAGGCCACCCTGGGCCTAGATGCCACCAGTCACTCCAGCTTCCCAGGGTGGCCCTGCCCTGCCACAGTGGTGTATTGGCCCCTGCAGCATCCTTACACAGCAAGAGGCACAGGCTGTTAAGCTCTCTTGGCCTCCAGCGTACCTCTTCTTCCTCAACCTTCCTCTCCCACTGACCGACTTGTCTCAGCCACATTTCTGCAAAGTACAGAGGGAGCCGTCCATCACTCACCTGAAGCCCCTGAGCTGACTAACTCAGTCATTTGTCTGCTGTGTCTTCCTATGGTTTATTGAGCACCTACTTATGTTTGAGCACTGAGCTTCCAGGAGCTCATTCGCTCATTCCATCAGCGATTTACCGAGTGCACAGCAGATTGGCTGAGAGCCCAGTGAGGCTCCCGAGCTCACTAGGCAGGCACTGCTCACCGCAGGCTCGTCTCTGGCTGGTCATGCAGTCACCGTGTATGATAGAACCAAAAAAAGGCAAAAATCGCTGCTTTCAAAGTGTTAGCTTCTTGGACGGATGTGTTAAGAGGGAGGGGCTATGCAAGACAGTGCTAACTAAAGGGGTTTAAGGCTGTATCCACTAAAACTTGTAACGCGATGCTGAAGGTATGCTCAAGCAAACCCTTCCTGCAAAGGGGTTCGCAGACCTGGGTGTGTGTGCCCACAGCCACAGGGTGTCAGCCTGAGTGTGATCTCTGCTTTCAG
Seq C2 exon
GCCTACATGACTTGCTTCATCCGGATCTGACCCTGGCCAGTGACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008031:ENSRNOT00000010746:20
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]