RnoINT0063556 @ rn6
Intron Retention
Gene
ENSRNOG00000000007 | Gad1
Description
glutamate decarboxylase 1 [Source:RGD Symbol;Acc:2652]
Coordinates
chr3:56899926-56902157:+
Coord C1 exon
chr3:56899926-56900015
Coord A exon
chr3:56900016-56900726
Coord C2 exon
chr3:56900727-56902157
Length
711 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
3' ss Seq
CTTATGTTCTCTATCTCAAGGTG
3' ss Score
8.99
Exon sequences
Seq C1 exon
CCTGAGCACACAAATGTCTGTTTCTGGTACATACCACAAAGCCTCCGAGGGGTTCCAGACAGCCCTGAGCGACGAGAAAAACTACACAGG
Seq A exon
GTAAGGACGCTCTTTCTGTCTCAGATGCCCGGCTGCTGCTACTGTTCGCTCGCTGGTCAGGCCATCTTGGTGCCTCTGTGCTGTTCTCAAAAGGGAAGGATTAGAAAGTTAAAAAAAAAAACGTTTCAGGGTGGACTTCTGGGTAATGGGTGTTACAAAGTCGTCCTCTAGAGTCTGCATTGTCCCTGGCTGCAGTTCAGATACAATAGGAACCTCTAAAAAAAATGGAGTCCCACTTGGGACTGGTGCTCTTCTTTACAGAGGCTCTCTTGGAACATTCCGGATTCTTCTTTGTTTGCGCTGTTTTACTAAGTCCAAGCCTAGTCGAGTTCAGACTCATGTTCTCTGTCGATTTCTACATCTAGATTATCCACTCAAGGTTGTTGCCATATTTATGCATATTATGCAACCCGTGGAGTGGATATTTGATAAACTGAGTCTGTGTGCCAGGCAGTATCCTGGACTCCTGGCTATGTACATCAAAACTTGAAGTGTTTTGTCTTCGCTTCTTCTTTTTTTTCCATTGTTTTATCATTGTTCCAAGACTGACTTCCAAGGTTGACCTGCCCAGTGTTTTCTAAAGGAACTGGTGGTCAGGTGGGTTTAGATATTAGCCATGAAAGACACTTTGAAAAGTAAGTCAAGTTGCTCTGTTAAAACGAGGGGTGTCAGCGTTGGTGCTGAGTTTGGCCTTATGTTCTCTATCTCAAG
Seq C2 exon
GTGGCTCCCAAGATCAAAGCCCTGATGATGGAGTCAGGAACAACCATGGTTGGTTACCAGCCTCAAGGGGACAAGGCCAACTTCTTCCGGATGGTCATCTCCAACCCAGCCGCCACCCAGTCTGACATCGATTTCCTCATCGAGGAAATAGAGAGGTTGGGTCAAGATCTGTAATCCCCCCCCCCCCTTTGCAGAACCGTAATCACCGGCCATAGCCCTGCCCCTCTGGCACCCTAGAACGCAGCTCTGTCAGTAGTTGACACACCTAGGCCATTTCACTGAAGGAAATTATAATCTCTTAAAGAATATTTGTCACATCTCACGTAAGCTTGTTTGTTAGAATTAGCGGGAAATGATGTTCTTTTAAAAAAATTGCACATTAGAAACACAGTATATATGTACAGTTATATATATATATATACCTCTCTCTATGTACTATGTATGTATAGTGAATGTGGCTTAGTCCTAGACCACAGCATGTCGCTCGCTCCCAGGGAATTAGCCTCACCCCCAGCAATTACTAAGAGGCTAACCATCTCGCAAGCAACTGCAGGACAGATGGTACCCCCACTGCAGTGTCCTAGGGACCCAGGGAAAGGCCGTTGCTGGGAGCCTACCGCCCTGCTAGAGCTGTCCCCACCTGAATGGATGGATGATGGATGGTAGGAAGTACCAGTAGATGACAAATGTCACACCCTCCCTGTTAGTGCCCTGCTAGGGGATATAGTAGCAGAGTCTTTGTCACAATTGTGCTGTTGCTGCGTTTTAGAGATTAATCTGTGTAAACTGTACATTACCGTTGTCTATCTTTGGGCAGGGGGAAGTGCATATAATGATTTAATTGTACGTCAGTGAGATATTTGCTTATTTATATTCAAATATATATCATGTTAAAGAGACATCTTGTATTTTCTTCCCATTTGTAATGTATCTTATTTATATATTAATGGAGTAAGTTCTGGATACTGTTTATGGTATTTTCGTGCATTTGTGAGCCAAAGAGAAAAGATGAAAATTAGTGAGACTTGCATTTATATTTGAGTGCCCTTAACATAATGATTTGAACACATGTGTACTGTCTGGAAACGAATTCTGATACTGTACATAGAGTGGCGTTATGGAAATCTTGCTTCAGTAGCCTTTGCTCTTCTCTTTCCCCCCTCAGGCTGTACGTCAGGTGTTCTCAAAGCTTTTCTAGTAACTGTTGAAAAATAATGACTAGATCTCCTGTAATTTTGTAGTAGTATATGACCAATCTCTGTGACTCGCTTAGCTGAAACCTAAGGCTATGTTTCCGAAGATCTCCGATACACTGACCAGTCCCACAAGTGTTTTTGAAGACATGAAACCCACACTGTGCATTTAGAGTATGCAAGAAGAATATAAATAAAATAAAAAAATATTCTCCATGAAGAGTTTGTATTCCAGTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000007:ENSRNOT00000000008:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.133 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0028214=Pyridoxal_deC=PD(2.7=33.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATACCACAAAGCCTCCGAGG
R:
CAGTGAAATGGCCTAGGTGTGT
Band lengths:
342-1053
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]