DreINT0040027 @ danRer10
Intron Retention
Gene
ENSDARG00000078760 | cacna2d3
Description
calcium channel, voltage dependent, alpha2/delta subunit 3 [Source:ZFIN;Acc:ZDB-GENE-030616-133]
Coordinates
chr11:36465318-36466024:-
Coord C1 exon
chr11:36465891-36466024
Coord A exon
chr11:36465336-36465890
Coord C2 exon
chr11:36465318-36465335
Length
555 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
TTCTCCCTGTGTCCCTATAGCTC
3' ss Score
11
Exon sequences
Seq C1 exon
GTTACTTTAGTCAGATCTCCACACTGGCTGACGTTCAGGAGAATGTGATGCGGTATTTACATGTGATGAGCAGACCTAAAGTTATCGACCACGAACATGACACAGTGTGGACTGAGGCCTACGTCGACAGCGCA
Seq A exon
GTAAGTATTGATAGTCATGCTTGCATTGTTTGTGTAAATACAGCATCTGTGCTCCTTTACAAAACTGTACAATGCGAAGCGTAGTTACCACAAAAATACATAGTTTTTGCTAAAATGAGATGCCACTCTTTAATTCTAAATCACCACAATCATCAAATAGCTAATTGTTGGGAAGAAACACTTTTTTGGAGGAAGATCCCATGCTATGTTATGGATTTATTTCAATTATTGACGAAAAACTATACCAAGTAACTATGGAATTATTTTAGAAATGATTGACACTGTGGTACATTTTTGTAAAGGGTTTGCTGTCTAAAAAATCTGATTATTTTCTCTTCTTAATGTATGTGTTGTCTACTGTCGCCTTCATAAAATACAACTCAGTCCTCATTAGTAGCTCGGTTAACTCCCTGAAGGTCTTATCAAGACACTCTTCCATTCAGTGAGCACTCAGAAGCAGATCAGGTCACACACCGTGCAGTGTGTCTCTTGTATGTGTGTAGACGTGAGCACATGTCAATGACACATATTATTTTTCTCCCTGTGTCCCTATAG
Seq C2 exon
CTCGCACAGGCGCACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078760:ENSDART00000002055:13
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:
PF137681=VWA_3=PD(2.4=8.9),PF0274313=Cache_1=PU(8.2=17.8)
A:
NA
C2:
PF0274313=Cache_1=FE(5.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
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]