HsaINT0067228 @ hg38
Intron Retention
Gene
ENSG00000128683 | GAD1
Description
glutamate decarboxylase 1 [Source:HGNC Symbol;Acc:HGNC:4092]
Coordinates
chr2:170858804-170861151:+
Coord C1 exon
chr2:170858804-170858893
Coord A exon
chr2:170858894-170859708
Coord C2 exon
chr2:170859709-170861151
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
GTGGCTCCAAAAATCAAAGCCCTGATGATGGAGTCAGGTACGACCATGGTTGGCTACCAGCCCCAAGGGGACAAGGCCAACTTCTTCCGGATGGTCATCTCCAACCCAGCCGCTACCCAGTCTGACATTGACTTCCTCATTGAGGAGATAGAAAGACTGGGCCAGGATCTGTAATCATCCTTCGCAGAACATGAGTTTATGGGAATGCCTTTTCCCTCTGGCACTCCAGAACAAACCTCTATATGTTGCTGAAACACACAGGCCATTTCATTGAGGGAAAACATAATATCTTGAAGAATATTGTTAAAACCTTACTTAAAGCTTGTTTGTTCTAGTTAGCAGGAAATAGTGTTCTTTTTAAAAAGTTGCACATTAGGAACAGAGTATATATGTACAGTTATACATACCTCTCTCTATATATACATGTATAGTGAGTGTGGCTTAGTAATAGATCACGGCATGTTTCCCGCTCCAAGAGAATTCACTTTACCTTCAGCAGTTACCGAGGAGCTAAACATGCTGCCAACCAGCTTGTCCAACAACTCCAGGAAAACTGTTTTTCAAAACGCCATGTCCTAGGGGCCGAGGGAAATGCTGTTGGTGAGAATCGACCTCACTGTCAGCGTTTCTCCACCTGAAGTGATGATGGATGAGAAAAAACACCACCAAATGACAAGTCACACCCTCCCCATTAGTATCCTGTTAGGGGAAAATAGTAGCAGAGTCATTGTTACAGGTGTACTATGGCTGTATTTTTAGAGATTAATTTGTGTAGATTGTGTAAATTCCTGTTGTCTGACCTTGGTGGTGGGAGGGGGAGACTATGTGTCATGATTTCAATGATTGTTTAATTGTAGGTCAATGAAATATTTGCTTATTTATATTCAGAGATGTACCATGTTAAAGAGGCGTCTTGTATTTTCTTCCCATTTGTAATGTATCTTATTTATATATGAAGTAAGTTCTGAAAACTGTTTATGGTATTTTCGTGCATTTGTGAGCCAAAGAGAAAAGATTAAAATTAGTGAGATTTGTATTTATATTAGAGTGCCCTTAAAATAATGATTTAAGCATTTTACTGTCTGTAAGAGAATTCTAAGATTGTACATAAAGTCATATATATGGAAATCCTGTTACTTAAATAGCATCTGCTCTTCTCTTACGCTCTCTGTCTGGCTGTACGTCTGGTGTTCTCAATGCTTTTCTAGCAACTGTTGGATAATAACTAGATCTCCTGTAATTTTGTAGTAGTTGATGACCAATCTCTGTGACTCGCTTAGCTGAAACCTAAGGCAACATTTCCGAAGACCTTCTGAAGATCTCAGATAAAGTGACCAGGCTCACAACTGTTTTTGAAGAAGGGAAATTCACACTGTGCGTTTTAGAGTATGCAAGAAGAATATAAATAAATAAAAATATTCTCCATGGAGAATTTGAACAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000128683:ENST00000358196:16
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
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