DreINT0071049 @ danRer10
Intron Retention
Gene
ENSDARG00000015537 | gad2
Description
glutamate decarboxylase 2 [Source:ZFIN;Acc:ZDB-GENE-030909-9]
Coordinates
chr24:6125760-6126511:-
Coord C1 exon
chr24:6126399-6126511
Coord A exon
chr24:6125876-6126398
Coord C2 exon
chr24:6125760-6125875
Length
523 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGC
5' ss Score
9.14
3' ss Seq
ATTTCTTTATTGTCCTCTAGGTG
3' ss Score
11.72
Exon sequences
Seq C1 exon
GTTCACCTATGAGGTGGCTCCAGTCTTCGTGCTGTTGGAATACGTCACGCTGAAGAAGATGAGGGAGATCATTGGCTGGCAGGACGGCCACGGTGATGGAATATTCTCTCCGG
Seq A exon
GTAAGCAGCTGTCAATCTCCGTGACCTGCCCTAATCTGAGCTGTGTGCTTCTGCTGCAACATGAGCGCAAAGACTGGTTTAAAGTCTGAAGTTGTTAGGATGAGGTCTATATTTAAGGATCTCTATACTCATCAACTGATGTATGATTCCAACCACAACAATTCAGAATCTGATGCAAATGATTGCAATTTCTGCACTGCTGTTCTGTCCACAAACACCCCCCAATTAGCCTACAGAACGGATCAGGCATCAATAGGCAAATCATAAATAGTATGTGATGTGGATATTTATTAGCATAAATCAAATGCAAATCATAAATAGTATCTGATGTGGTGAATTATTTTCATATTAAATGAAAGGCAAATCATAAATAGTATATGTGGTTAATTATTTGCAATTTGTTAAATTAAATCTTTAACTTTAAAAGAGCAGGACATTTAGGTCTCTAGAAAAAAGAGGGGGTAAAACCTGACAGGAACTTTTTCATGTGATGGAATTTAAGGATTTCTTTATTGTCCTCTAG
Seq C2 exon
GTGGCGCCATTTCCAACATGTATGCCATGCTACTGGCTCGCTATAAAATGTTCCCTGAGGTGAAGGAGAAAGGAATGTCATCCGTACCTAGGCTGGTGGCCTTCACATCAGAACAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000015537:ENSDART00000021609:6
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:
PF0028214=Pyridoxal_deC=FE(10.2=100)
A:
NA
C2:
PF0028214=Pyridoxal_deC=FE(10.2=100)
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:
CCTATGAGGTGGCTCCAGTCT
R:
GTTCTGATGTGAAGGCCACCA
Band lengths:
222-745
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]