GgaINT0021014 @ galGal3
Intron Retention
Gene
ENSGALG00000005400 | CACNA2D3
Description
NA
Coordinates
chr12:7848580-7849526:+
Coord C1 exon
chr12:7848580-7848651
Coord A exon
chr12:7848652-7849445
Coord C2 exon
chr12:7849446-7849526
Length
794 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
3' ss Seq
TGTCTTATTGTTCTTTTCAGAGA
3' ss Score
10.17
Exon sequences
Seq C1 exon
CTTGCTGACGATCAGGGATTGGTGTTGATGACAACTGTTGCCATGCCGGTATTTAGTAAGCAAAATGAGACT
Seq A exon
GTAAGTACTCAGACTGTTTCTGCTGTGTGATCATAGGGTGACTGCTGGGAAGTTGCTTTTAGGAATCTAAAAATGTTTTAGCTTGCTCTGTAAATTTTTGTTCTTTTCTTCTTATTTAATCTACAGTTATTATCCCTGCGCTGGTATAAAAATGTGGATGAATAATCCCAACTACCTATACCCTAGACACCATAGTAAAATAATAAAACCCTATGTCTAAGAGAAAAACTCAGGCAACAGCACTTTCTTTCTTCTATGTTACCTTCTTACAGCAGATAATCCATATATTTTTTCTTCTTTGTACTGGTAGGCTTCTATTGTGTAGATCCAGAATTTAATTACTTGTGCTTATATCATAGATATATATATATTTACTTTTGTTAATTTAAGACTTTATTGAAGGAAAATGTATGCATAATTTTCTTTATGCTTAGTTCTCTTGTCTACTGAATGGTGGGATAAATTTTGAATGAAGGAAGTAACACGTTTTAGCCACTTTTTTTTTTTCATTTGGAAACTATTTTGAATGGGGAAATTTTCTGTAGAAGGACTCATTAACTATTGGAAGTTTGAATACCTTTTCTATCTGAATTGCAGATAAAGTAGAAGGGAGAACCGTTATTGACTAAATGACTGCTTGATCGGATTAACAGTACCAGCTTCTGCTTTCCCTAGCTTTTAAATGATCTCTCTGTTATCTATTCACTTCTCTAGAGTAGCTACAACGTTAAATTAGTAGTGAGAATGTTCATTACTATTGTGTTTCTCAGTACATGTCTTATTGTTCTTTTCAG
Seq C2 exon
AGATCAAAAGGGATTCTCCTGGGAGTAGTTGGCACAGACGTCCCAGTTAAAGAACTTCTAAAAGCTATTCCAAAATACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005400:ENSGALT00000036263:11
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(25.0=100)
A:
NA
C2:
PF0274313=Cache_1=FE(28.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
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]