RnoINT0028208 @ rn6
Intron Retention
Gene
ENSRNOG00000008031 | Cacna2d4
Description
calcium voltage-gated channel auxiliary subunit alpha2delta 4 [Source:RGD Symbol;Acc:1562038]
Coordinates
chr4:151406550-151408177:+
Coord C1 exon
chr4:151406550-151406667
Coord A exon
chr4:151406668-151408064
Coord C2 exon
chr4:151408065-151408177
Length
1397 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
CATTGCTGTCTCTGCTGCAGGAC
3' ss Score
10.27
Exon sequences
Seq C1 exon
CCCACAAGCACAAGAAGCAAGACCTCCTGCACCCCTGTGACACAGAGTACCCAGTGTTCGTGCACCAGACGGCCATCCGGGAGGCCAACGGGATCATCGAGTGTGGGGGCTGCCAGAA
Seq A exon
GTAAGTCTCCAGGCAGCACAGGAGGGTCTCCTCAGGAGAAAAGAAGTGACATCTCAGAGAAGAGTTGCCCTCCTTAGCATCCCGATGTTCAGTACAGCAAAAACCCAGACTCAGGCAGAGGGGAGGGGACTTTGGTTGTCTGCTTTAGGAGACACAAGGACAAGGGTCTAGAGGCCAATTCCCATGTCTGTGAGTCTGAATCCAAGACCACGGGGTCTCTCTTGGAAACCCCGGAAGGCTTGCTTCCCTTCTGCTAGGGGCAGATCAGCCTCAGCAAGGATGTGCCTTAAACACTTACGTGACAGACCAGGAAAATGGCAGAAGGTTCTGCCCTATACAAAGCAGAAGCTATGTGCAGGTCTGGGGTGTTCTCAGCAAAGCACAGTGTCGTTTTGGGGGCCTTGGAGCTGTCAGAGCCCGGGGCATCGCCAGCCCAAGCCTAGAATTTCTAAGCGGGATCCAGTCAGGCTAGCTCCTGGGTAGAAGTCCCTAGCTTCATCCAGACTGACTTGGAAGGCCAAGACTACTGACTTCCCACCCCAAACTTTGGAGACACAGACCCAGAGACATCTGTCCCAACCCAAGAGGACAGACAGTACCTCCAGGGAGCTCTCTCGGCCAGTCTTGCAGCTTACTAGGACCACCAGGATGTCTGGGAAACCACAGACCTATGCCAACGATTTGTAACCCCGGATTCTGGCCTTAGATCTAGGTTTCTGCCTCTTCCTTCCTGGGACTAGCACTATTGGCGTGTTTACCTCAGGCTTGAAACCATCAAGGGGATGATAGAGAGTAAGGGCTTCCCAGCAGACAGTCTTGACTCTGCCTCCAATCTTTTCCACTTCTAGTACAACCGTAGGCAGGCTTACTTCTTCTAGCTAGTTTTGTCCTGTGCATCATGGGAACTACACCAAGTTCGCAAATTAGTGTAATGGCCACATGTGAGTTTATATGTGTGCTCTAGACCTGTGTGTGTCTAACATCACCCACCACCATACAAAATGCTTGGTGATAACCTTCTCAACTGTGTATGTAGCACCTCCTTACCCTGCACATAAAGACCTTTCTCTAACCCCCACCCCCACCACAAGCTGTATATAGGAGCATGGTGCCATCTTGTGGCCAAGCCCAGAACTGCACACTCTCTGGCTCTCAGATAATATTCCTGTGTGCTGGAAATGATCCCTGTATGCATGCTAATGACAGCTCCCTCTTCACCTTCTCCAGGCTAGAATGGATGAGTGCTATTGTGAAGGCTCGTGTAAAAGTATTGGGCTACTGGTCTCAATATTCCTGTGACTGCACATCCTTCCCAGTGCCCCAGGTCTCTCCCCGGAGAACTTTTGGAGGCTGCACTCCTACTACTCAGAGCCCATTCATTGCTGTCTCTGCTGCAG
Seq C2 exon
GACATTCGTGATGCAACAGATTCCCAGCAGCAACCTGCTCCTGCTAGTGACAGACCGTACCTGTGACTGCAGCGCCTACTCTCCCATCCTCCAGGAGGCCACAGAAGTCAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008031:ENSRNOT00000010746:36
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCACAAGCACAAGAAGCAAG
R:
TTTGACTTCTGTGGCCTCCTG
Band lengths:
230-1627
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]