HsaINT0067228 @ hg19
Intron Retention
Gene
ENSG00000128683 | GAD1
Description
glutamate decarboxylase 1 (brain, 67kDa) [Source:HGNC Symbol;Acc:4092]
Coordinates
chr2:171715314-171717659:+
Coord C1 exon
chr2:171715314-171715403
Coord A exon
chr2:171715404-171716218
Coord C2 exon
chr2:171716219-171717659
Length
815 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGG
5' ss Score
9.26
3' ss Seq
TTTGTGTTTTCCATCACAAGGTG
3' ss Score
7.46
Exon sequences
Seq C1 exon
CCTGAGCACACAAACGTCTGTTTTTGGTATATTCCACAAAGCCTCAGGGGTGTGCCAGACAGCCCTCAACGACGGGAAAAGCTACACAAG
Seq A exon
GTATGGACTTGCTTTTTGTCTCATCTAATCCTCTGCAATTTCTCTGGCTGGTCAGGACATCCTCATTCCAATGTGCCTTTCTAGTGGGGGAAATATAAAAAATAAAGCCTTGGGGTGGGTTTCTAGTAATGGGGTGGTGGGGAGCCATCCTGTTATATTCCTCTTGAGCCTGCATCGCCCCCTTACTGTGGTTACCACGGGAACTTCTAAAGGATGCATCTTGTCTCCTTGTCCTTGGTTGATGTTCTTCATTAAAGGAGCCCTATGCAGGGTAAGGGAATAATGTGCATATTCCTAGGGACATTCTAGATTAAACTGTGTCTGTTACAATAACATTTTAAGTTCAGGCCCACTGTAATGCTGATTCATTCTAACTGTTTTCTATATCCAGTTTATATCTTATCCAGGGTTCTTAAGATTATATTTAATTTATATAACATTTCATTCATCCAACCATTCAACAAATATTTGTTAAACACAGTCTGTGTGCCAGGCAGTATCCTGGGCTCTGGGTTATACAAAACCCTGAATTTGTGGTGTTGTCTATAAGAGTTTTTTGGTTTTGTCTTCATTTTTTATTTTACTATCATTGTTCCATGACTGACTTTCAAAATTCGGTTGCACAGTACTTTCTGAGGGAACTTGTGACCAGGTAGTCATTTGATATTAGCCCCTGAAGATTCCTGGATATGAAATATTTCTTTGCTTTTATGTCAATGTAAACACAAATAGTAAAATGCAAGTTGGGTTGAATTGTTAAAAAGAGAGGGTGTTCATATCAATCTTGAGTTTTGTTTTGTGTTTTCCATCACAAG
Seq C2 exon
GTGGCTCCAAAAATCAAAGCCCTGATGATGGAGTCAGGTACGACCATGGTTGGCTACCAGCCCCAAGGGGACAAGGCCAACTTCTTCCGGATGGTCATCTCCAACCCAGCCGCTACCCAGTCTGACATTGACTTCCTCATTGAGGAGATAGAAAGACTGGGCCAGGATCTGTAATCATCCTTCGCAGAACATGAGTTTATGGGAATGCCTTTTCCCTCTGGCACTCCAGAACAAACCTCTATATGTTGCTGAAACACACAGGCCATTTCATTGAGGGAAAACATAATATCTTGAAGAATATTGTTAAAACCTTACTTAAAGCTTGTTTGTTCTAGTTAGCAGGAAATAGTGTTCTTTTTAAAAAGTTGCACATTAGGAACAGAGTATATATGTACAGTTATACATACCTCTCTCTATATATACATGTATAGTGAGTGTGGCTTAGTAATAGATCACGGCATGTTTCCCGCTCCAAGAGAATTCACTTTACCTTCAGCAGTTACCGAGGAGCTAAACATGCTGCCAACCAGCTTGTCCAACAACTCCAGGAAAACTGTTTTTCAAAACGCCATGTCCTAGGGGCCGAGGGAAATGCTGTTGGTGAGAATCGACCTCACTGTCAGCGTTTCTCCACCTGAAGTGATGATGGATGAGAAAAAACACCACCAAATGACAAGTCACACCCTCCCCATTAGTATCCTGTTAGGGGAAAATAGTAGCAGAGTCATTGTTACAGGTGTACTATGGCTGTATTTTTAGAGATTAATTTGTGTAGATTGTGTAAATTCCTGTTGTCTGACCTTGGTGGTGGGAGGGGGAGACTATGTGTCATGATTTCAATGATTGTTTAATTGTAGGTCAATGAAATATTTGCTTATTTATATTCAGAGATGTACCATGTTAAAGAGGCGTCTTGTATTTTCTTCCCATTTGTAATGTATCTTATTTATATATGAAGTAAGTTCTGAAAACTGTTTATGGTATTTTCGTGCATTTGTGAGCCAAAGAGAAAAGATTAAAATTAGTGAGATTTGTATTTATATTAGAGTGCCCTTAAAATAATGATTTAAGCATTTTACTGTCTGTAAGAGAATTCTAAGATTGTACATAAAGTCATATATATGGAAATCCTGTTACTTAAATAGCATCTGCTCTTCTCTTACGCTCTCTGTCTGGCTGTACGTCTGGTGTTCTCAATGCTTTTCTAGCAACTGTTGGATAATAACTAGATCTCCTGTAATTTTGTAGTAGTTGATGACCAATCTCTGTGACTCGCTTAGCTGAAACCTAAGGCAACATTTCCGAAGACCTTCTGAAGATCTCAGATAAAGTGACCAGGCTCACAACTGTTTTTGAAGAAGGGAAATTCACACTGTGCGTTTTAGAGTATGCAAGAAGAATATAAATAAATAAAAATATTCTCCATGGAGAATTTGAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000128683-GAD1:NM_000817:16
Average complexity
IR-S
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
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGAGCACACAAACGTCTGT
R:
ATGGCCTGTGTGTTTCAGCAA
Band lengths:
356-1171
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)