RnoINT0063551 @ rn6
Intron Retention
Gene
ENSRNOG00000000007 | Gad1
Description
glutamate decarboxylase 1 [Source:RGD Symbol;Acc:2652]
Coordinates
chr3:56889609-56890896:+
Coord C1 exon
chr3:56889609-56889725
Coord A exon
chr3:56889726-56890831
Coord C2 exon
chr3:56890832-56890896
Length
1106 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGT
5' ss Score
9.11
3' ss Seq
TCTCTTTTCTGTCCTTGCAGGCT
3' ss Score
12.26
Exon sequences
Seq C1 exon
GGATTTGTTCCCCTTTATGTCAATGCAACCGCAGGCACGACTGTTTATGGAGCGTTTGATCCGATCCAGGAGATTGCAGACATATGTGAGAAATACAACCTTTGGCTGCATGTGGAT
Seq A exon
GTAAGTGTCCTTGTCACACACAACCTTGTCCTGTTAAGGGGTAGAAATAACCCTTTTCACCCTGAACACCCTGCCTGGCCCTACCTGCATACATTTGCTCCTGCTCTTCCCCACTCCTCAGTGAGCCATTTGTGAACAGTGCATGCCTCAGGACCTGGTCACCCTCTGGGATTCATTCTGTCCTGGCCAATGGTTACCTTGTGTGGATCCTTCTAGAGCCTACTGTGATGACCACTTGCTTTATTTGGATGAATGGATGTAAAGTAAAATATACCTGACTTCAGATAGAAAAGAAATTCTGAAAAGGATTTCAGAAGAAACTAAGACATGGCGTCCAGGAAGTGGCCATGAGTGTGAACACTTAGTCACCTGCCTGCATCCCACATCTGGAACACTTCTCAGAAAGATGTCCATCTGCTTCATGAAGGAAAATAAGGATGTATACAGAAGACATGAGCAGCTATGAGATTAATCCGGAAGTTTCCCAGCAAATGTGTGCTCTTACGTACATCATGGGAGCCCCCCCTCCCCCATGCATTTTCTCATTGGATGTAATTTCTTGGATGTAGACAAAAGGAAAATCTGCCCCGCTGTTGAATAAATGGCTCACAAAGGCTGTGCTGTGTCGAATGCTATGCCAGGCTTAGCATTACAGTAAAACAGGTATCGTGGTACCCAGAGCAGTGTCTCCTATGACTGGGGCTTCTGAGTTTCTCAAGACTTTGTTGGAAGAGGCAGGCAGTTGCTCCTACCGTCTAAGCTGCCTTCAGTACCGCCATGGCTGTCAAGACTAGTATATTGGATTCAGAGAATCCCTGGCTTGTCGCAACACTCTGTGTTTCGATCCACAGTCACCGCAAACAATCCACTCTTTCTAGATCATGAAGACATTCTCTGGAGGAAGTTTATATAAAGAAATGGAAAACACTGATGAGCCCACAGCCTTGGCAACTCGAACTGTTGGCACGGGCTTTTCCACAGGCCATCCCTCGCGTAACCTTGATCTGCCGTCTTTGCTTCCCTCGTGCTGGAATGAAAGGCATGCCTAGCTTCCTTCTAGAGTCTTCAGCATTAAAGCTCCTCTGGTCTCTTTTCTGTCCTTGCAG
Seq C2 exon
GCTGCCTGGGGTGGTGGGCTGCTCATGTCCCGGAAGCATCGCCACAAACTCAGCGGCATAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000007:ENSRNOT00000000008:11
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:
PF0028214=Pyridoxal_deC=FE(10.1=100)
A:
NA
C2:
PF0028214=Pyridoxal_deC=FE(5.6=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:
GGATTTGTTCCCCTTTATGTCAATGC
R:
CTTTCTATGCCGCTGAGTTTGTG
Band lengths:
182-1288
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]