DreINT0071007 @ danRer10
Intron Retention
Gene
ENSDARG00000093411 | gad1a
Description
glutamate decarboxylase 1a [Source:ZFIN;Acc:ZDB-GENE-070912-472]
Coordinates
chr9:3679308-3681730:-
Coord C1 exon
chr9:3681649-3681730
Coord A exon
chr9:3679350-3681648
Coord C2 exon
chr9:3679308-3679349
Length
2299 bp
Sequences
Splice sites
5' ss Seq
CAAGTAGGT
5' ss Score
7.33
3' ss Seq
AGACTACGACTGGAGTGGAGTCG
3' ss Score
-16.32
Exon sequences
Seq C1 exon
ATGGCGGCGTCTGCACCCTCCTCCTCCTCTTCTGGCGGCGTTCCGGATCCCAACTCGACAAATTTACAGCCACCTTCCTCAA
Seq A exon
GTAGGTCCATCACCGATAAACCGCTATTTCACTCCGGCTATTTGCTTTGTGGCCGGCGTCATTAATCTTGTCGGTGAGGCGGGAAAACGGCGCCGTTCAGGACCAACAAATCACCGCAGCAGCAGCAGCAAATCCCGCGAGCAGAGGTGATGATTTTGGCCTTTAAACACACCTGCTCACTGGCAATTAGTGAAGACAGACGAGCAGCCGCCTCTGATCCGTCTTTATATATGTTTTTAGGTGATTTTTTTGTCTTGCTAGATGCACTATTAACAGGTAATGGCTGTCACGCGAGAATGGGAGATTTAAAATGTTTATTATTCTTCATATTATTATTATTTACGATTAACATTTAAATTATGATCCTATTAGACCTATTTGATATGTATTATAGTTTTATGTTTACAATTTTGTTTATTTATCCATTTTCCTTCGGCTTAGTTTCTGATTTATCAATGGTTGCACAGCGGAAGGAACTGCCAACTACTGGCATGCTTTTTTTTACACAGCATCCAAGCACTGGGAAATTAAATATTGTTGTTACCCTGTTTATTAATGTTATGATTTACTTTATTAATTATTATTATACTTTAATATGTTTATATTTTTTATTGTTGTTCTTATTTCTCATTGATAAAATTCATTCATTAATTTCCTTTGGTTTAGTACCCATCAGGGGTTTCCACAGCAGAATGAACCAACAACTACTCTGCCATGTTTTTTTACACAGCAGATGCCCTTTCAACTGCATCCCAGCACTTTGAAATGAATTGTTGTCAATTGTTGTTAGCCTATTTATTGTTGTTATTATTATTTTATTCGCTATTTTAGTAAGTTTATATTTTATATCATTGTTGTCCTGATTTCTTATTGTTATTATTCATTCATTTTCCTTCGGCTTAGCCCCCTATTTATTAGTGGTCGCCACAGCAGAATGAACCACCAACTACTCTTTTTTTTACAAGGCGGAAGCCCTTTCATCCACAAGCACTGCAAAATGAAGTATCATTGTTAGCCTATTTATTACTGTTATTGTTTATTTTATTCATTACTAGTTTCTATTTTTTTATATATTATTGTTGTTCTTATTTTTTTATTATAATCTATTTTATTTTATTTATTTCTAGAAAAATTATTCTGTATTATTAAGCTATTTATGTAGCCTAATATATATTGTCGCATATTCCTCGGTTTAAATAAAAAGCTCTGTCTGTAGAAATGAGCAAGTATAGCCTATTAAGTGTGGCGATAAATGTAGGCACTCTAAATAGCCACTAATGGCTCTCTGCTCGCTTCACTGTCCTTCTTTCTGATTGGGAGACACGCAGCTATGTTTATTAATTTTATTATGACAGACAGGAACAGAAACATGCTTTTCAGAAATTAGTCACGGCATATTGCGACTTTTGCATAGCTGCATTGCAAATAACATTTTCACCATCCCTGTTTTTCTTTTTATGACATTGCATGCTTATTTTGGCAGAATAGCCTATTTTTAAATGTATTTTATGTTTCATCTTTTTATATATGATCTTTTATCGCTTTTAAACGAAAAATAAACTGTTATTTATTATATTTTATTATATTCAATTTTAAATCTTTTCAGAGCAAATGTAATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATAATGATATTATGATTATTATTTTTGTTGTTTAAACATTTGTGCAAATTTAGAAATAATCCCATCATATTTTAAACAGCTTTGTTGAATGACTTCATGCCGCATTTGTCTGTCTTTTAAGCAATTATCAATTTACATAACAGTCTACTAAAAGTAAATCAGAATTAGGCTACAGCTGTGATGCGAAAGGATTTAATGCACCTCGGATGAACGGGAGTAGTCATTTTTTGGAGAAGAATGAATGGCAGGGGTTGCTGAAGCTGGGCTGAGGTCTGGCCCGACAGAGATAATGAGCTGGTAAATGGTGCTGAACGCGTATAATAGCGCTGCTGAGGGTTTGGGCCGCAGGGGTGGCACCAAATGTCCTCATGTGGCCCACAGTGACGCTTACATTCATTTCATATTAGCAGCATAAAGGATGGCGCGTTTACCGCTTGGGTGCACTTAGGAAGAGCGCTTCAATTGTACCGCTTTTGTGGATACAGGCGGAGACCATATAATTGTGGCTTTATTTGCCAAGATCACTTTGGTCGTTTTCTCCCTTTAGACTACGACTGGAGTGGAG
Seq C2 exon
TCGCTCATGGATGTACAAGGAAGCTTGGAATGAAGATATGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000093411:ENSDART00000140425:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.120
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
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]