DreINT0040116 @ danRer10
Intron Retention
Gene
ENSDARG00000023886 | cacna2d4b
Description
calcium channel, voltage-dependent, alpha 2/delta subunit 4b [Source:ZFIN;Acc:ZDB-GENE-100422-18]
Coordinates
chr25:18929084-18930717:-
Coord C1 exon
chr25:18930600-18930717
Coord A exon
chr25:18929200-18930599
Coord C2 exon
chr25:18929084-18929199
Length
1400 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
ATGTTCTCTGTCTTTTTCAGGAT
3' ss Score
13.92
Exon sequences
Seq C1 exon
CTCACAAGCAGAAAAAGGTGGAGCTGATGCAGCCGTGCAACACTGAGTATCCAGGTTTCATGTACGACAAGTCCATACGAGAGACAAACAGCATCATCAAATGTGGCCGCTGTCAGAA
Seq A exon
GTAAGTCCTGTAAAACTGTGCAGAGCTGTGACACTCCAGGAATTGAGGTTGAGACCATTTATATAAACTCTATAGAAAGGCATAATCACCTCGGTGCTTTTTAAATTGTATATTTAAGGGACACTCTTTTTTTGCAAATAGTCTTATTTTCCAGCTTCTCTAGAGTTGGGTTTTACCATTTTTGAATCCATTCAGCCAATCTCCGGATCTAGTGAGAGCACTTTTCTTTTAGCTTAGCATAAATCATTGAATCGGATTAGACCATTAGCATCTCATTTAAAAATAGTTTAAAAAATAATAATAATTTTGCTATATTAAACTTGACACTTCTGTAGTTACATTGTGTACTAAGACCTATGGAGAACGTTTTTCTAGATCAATATGTCTAAGCATACTCTCGTTCTTGCATAATAATCTAGGAACTTTGCTGCATTAGCATGGCTGCAGAAGGAGAAATTATATTATGCAACACCTGAAAATAATCCCTAGCTAGGTAACTAGGTTACAGCGATGTATGCAACTACAGATGAGTCGCGCTTTAAAGAGGAACAATTATCTAAACCCTTTTTTAAAAACGTTTTTAAACAAAATGCTAATGGTTCAATCCGATTTAATGGTTTATGCTAAGCTAAGCTAAAAGTGTTTCTCCCAAATCAGAATATTGGCTAAAAAAGTGGAGTGTTCCTTTAAACCGTGACAGACTTTACTCTACTCTACTTTACTCTCCTTATAATTTCTCAAATTTTTGAAGTTCTTTTCTCATAAATAGTTGATAGAATGCTCATGGCAGAGCAATTGGTTTTATGTTTACTGCAAAGTTTGCGTTCAGCAAGTAATTATGTTTTTAAAAGACATTTAGTAACTGTTAACAGTTTTCAGAAGTTTACCAGTAATTTACTGTAAATCAGTTACAGCAAAAATGCTGTATTTACATTAGCAGCACCATTTATCTTGCCGTATATGTATTTACAGAATTTTATGTATATCATTACTTTAAATACACAGTAATTTTTATAATGCAACTTTAAAATACAGTAACATACTTCATTACTGTTGGTAACACTTTATTTTGGTCGATTTGAGTGTTAGTAGACTGCCTGCTTAATATCTGTTGATACTGCTCATTCAACAGACATTTAACTGACTATAAGAAACTTAATAAGTACATGTCAACTGACACTAACCCCAACCCCAGCCTAACAGTCTACTTATAATTTAATGAGAATTAGTTGGCATGTAGATTCAATGAACCTTAAGTTTAACAAACGAACCATCAAAATAAAGTGTGACTTGACTATTAATTTATACTATAATACAATAAATACTAACAATAAATATTACAGGTAAATACTGTGTAATTTACAAAACTCGTTAACAGTGATGTTCTCTGTCTTTTTCAG
Seq C2 exon
GATGTTTGTCCTCCAGCAGATTCCTAACAGTAATCTGGTGATGCTGGTGGTTCAGGCGGACTGTGACTGCTCTCGACAGTATGCTCCAATCACGCTCATGCCCAAAGAGGTCAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000023886:ENSDART00000027465:34
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:
CTCACAAGCAGAAAAAGGTGGA
R:
GACCTCTTTGGGCATGAGCG
Band lengths:
230-1630
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]