HsaINT0067233 @ hg19
Intron Retention
Gene
ENSG00000128683 | GAD1
Description
glutamate decarboxylase 1 (brain, 67kDa) [Source:HGNC Symbol;Acc:4092]
Coordinates
chr2:171673200-171675183:+
Coord C1 exon
chr2:171673200-171673562
Coord A exon
chr2:171673563-171675038
Coord C2 exon
chr2:171675039-171675183
Length
1476 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGC
5' ss Score
8.84
3' ss Seq
GCTCTCGCTTCTCTTTGCAGCCT
3' ss Score
10.08
Exon sequences
Seq C1 exon
GCAAAACCGTGAGCTGGATTTATAATCGCCCTATAAAGCTCCAGAGGCGGTCAGGCACCTGCAGAGGAGCCCCGCCGCTCCGCCGACTAGCTGCCCCCGCGAGCAACGGCCTCGTGATTTCCCCGCCGATCCGGTCCCCGCCTCCCCACTCTGCCCCCGCCTACCCCGGAGCCGTGCAGCCGCCTCTCCGAATCTCTCTCTTCTCCTGGCGCTCGCGTGCGAGAGGGAACTAGCGAGAACGAGGAAGCAGCTGGAGGTGACGCCGGGCAGATTACGCCTGTCAGGGCCGAGCCGAGCGGATCGCTGGGCGCTGTGCAGAGGAAAGGCGGGAGTGCCCGGCTCGCTGTCGCAGAGCCGAGGTGG
Seq A exon
GTAAGCTAGCGACCACCTGGACTTCCCAGCGCCCAACCGTGGCTTTTCAGCCAGGTCCTCTCCTCCCGCGGCTTCTCAACCAACCCCATCCCAGCGCCGGCCACCCAACCTCCCGAAATGAGTGCTTCCTGCCCGCCCTAGTCCCTGCTCTCCACGGGTGCGCTGCGCAGGGACCCCCCCCCCCCCGCCTCCCTCGTCACTCTTCTTATCCCTGCCCTCCGGATTCACGCCCCGGGGAAGCACGGAGGCTGAGGCTCTAGTTGAAGTGGGGCAAGAGCGATTTTCCCTTGAGCTTCCATGCTGCGAGCGCCTGTCCCTCCAAAGGGCGCCTGGGCAGCAGCAGCCGAAGGCGCTACTAGGAACGGTAACCTGTTACTTTTCCAGGGGCCGTAGTCGACCCGCTGCCCGAGTTGCTGTGCGACTGCGCGCGCGGGGCTAGGAGTGAGGTCGGAGGGAGGGTGTGGAGGCGATGGCCGGTGGGCCCTTCTCTGTGGGGTCCTCGATCTACCCAGATTAGCCCGCAATCTCTCTGTCCCGGGGCCTTCGGGCGCCATCGCGCCAGCGCCGAGAGTCGAGCAGGGGCGCCGCGCAAGATCTTTGTCCGCCGCCTCCTGCGCGCTGCGCGCAAGTTCGTTTCCCCGGTGACGTTCCCCATGCTTACTTACCCCACCCTCTCTGGATCTGTACCGCGAGAAATCTGGGGTCCTCAGGGGGCTAGGTAGAGGAGAAACGCTGAAACCGGACCGAAACCTCGCCCTAGGCTTAGCGATGGCTAAAAACCGGCTGGGATAAGAGGGAGGCAAGCAACATTCCGACTCGCTGCTTTCTGGCTGTCTGGAGTGCAAGGTGACTGTGGTTCTTCTCTGGCCAAGTCCGAGGGAGAACGTAAAGATATGGGCCTTTTTCCCCCTCTCACCTTGTCTCACCAAAGTCCCTAGTCCCCGGAGCAGTTAGCCTCTTTCTTTCCAGGGAATTAGCCAGACACAACAACGGGAACCAGACACCGAACCAGACATGCCCGCCCCGTGCGCCCTCCCCCCGCTGGCCCACACGCCGGCTGCTGAGTGCCCAATGGGGCTTGTAGCGGCTCGGCTGGAAAATCGCTCACTGAGCGCTCCCCTGTGCTCCTAGCCTAGTCCCCCACACCCTTGCGTCTTGTACTGGCCTTGGACCCCCACCCCGACCCCGACCCCGCCTCGTCTCGGCGCTTCACTCCAGGTCGCGCCGATGCACCGCCAGACTCGAGAGCGGCCCAGGGCTACGCTCCCTGCGCCCCAGTACCGGAGCTAGCGCGCACGTCTCCTCCGCTGCCCCCACCCCTGCGCACCCCTACCAGGCAGGCTCGCTGCCTTTCCTCCCTCTTGTCTCTCCAGAGCCGGATCTTCAAGGGGAGCCTCCGTGCCCCCGGCTGCTCAGTCCCTCCGGTGTGCAGGACCCCGGAAGTCCTCCCCGCACAGCTCTCGCTTCTCTTTGCAG
Seq C2 exon
CCTGTTTCTGCGCCGGACCAGTCGAGGACTCTGGACAGTAGAGGCCCCGGGACGACCGAGCTGATGGCGTCTTCGACCCCATCTTCGTCCGCAACCTCCTCGAACGCGGGAGCGGACCCCAATACCACTAACCTGCGCCCCACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000128683-GAD1:NM_013445:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.816
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGGCACCTGCAGAGGAG
R:
ACTGTCCAGAGTCCTCGACTG
Band lengths:
352-1828
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)