DreINT0071038 @ danRer10
Intron Retention
Gene
ENSDARG00000015537 | gad2
Description
glutamate decarboxylase 2 [Source:ZFIN;Acc:ZDB-GENE-030909-9]
Coordinates
chr24:6128892-6129604:-
Coord C1 exon
chr24:6129218-6129604
Coord A exon
chr24:6128955-6129217
Coord C2 exon
chr24:6128892-6128954
Length
263 bp
Sequences
Splice sites
5' ss Seq
CGCGTAAGT
5' ss Score
9.93
3' ss Seq
CACTCGCTTGGTCGTTTCAGCTA
3' ss Score
5.2
Exon sequences
Seq C1 exon
ATCAGTGCCAGTGTTTCTCCATGAGTTCAGTGACGGTCTCCGGCTGCTCCAAATCATTGCGCACGGCGCACCAGCTGAATATAGACACTCTGTGCTTTGCCTGAGAGCTTAGAGCGTGTTTTATGAGCTCTTTAGCAATTAAGTCACTTGATTTGACGCGTTTGGACAGGTGTGATTGTACACGCATTGGATTTCCAGCGCATCGGACAAGATTCAGCACCACGGCTGCGGACAGCTCCCGTTCCCCGGTGACGCGCGTCTGGATGGCTTCTGCTCGCGTGTCTCTGTCGCTGCTCTGATCCGCTCCGCTCGCGATGGCATCACACGGGTTTTGGTTTCTGGGGGCTGAAAACGCGGCTGGAAACGGCAGTCAAAGCCCGAACACGC
Seq A exon
GTAAGTGAAAACGAAGCCTGCAAGATTGTGTTTTATGCATTAGTGGCCACGACACAAAAGAAATGCGACATTTATTGTGTCTTCAATGCTCAAGGTTAATTTAAAGCCTTGAAATGTCATGCCAGGTTTGTCGTATGATAATAAACAAGTGGAATTACATCGGGGGGTTTTATGACCAAATCCATACCACGGATTATTAATGTTTTTAAAGGAAGTTTTATGACGGATATGATGCTAAAATCACACTCGCTTGGTCGTTTCAG
Seq C2 exon
CTAGAGCATGGTGCCAGGCGGCGGCCCAGAAATTCAGCGGAGGCATCGGCTCCAAATTATGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000015537:ENSDART00000021609:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.145 A=NA C2=0.009
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTTGACGCGTTTGGACAGGT
R:
TAATTTGGAGCCGATGCCTCC
Band lengths:
296-559
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]