HsaINT0171651 @ hg19
Intron Retention
Gene
ENSG00000136527 | TRA2B
Description
transformer 2 beta homolog (Drosophila) [Source:HGNC Symbol;Acc:10781]
Coordinates
chr3:185639799-185641772:-
Coord C1 exon
chr3:185641584-185641772
Coord A exon
chr3:185639915-185641583
Coord C2 exon
chr3:185639799-185639914
Length
1669 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
AATTTATTTACCTTTTGAAGGCT
3' ss Score
5.35
Exon sequences
Seq C1 exon
GCAAATCCTGATCCTAACTGTTGTCTTGGAGTATTTGGGCTGAGCTTGTACACCACAGAAAGAGATCTAAGAGAAGTGTTCTCTAAATATGGTCCCATTGCCGATGTGTCTATTGTATATGACCAGCAGTCTAGGCGTTCAAGAGGATTTGCCTTTGTATATTTTGAAAATGTAGATGATGCCAAGGAA
Seq A exon
GTAAGTAAAAGCCCGTTCCTTTGTAAACCATCAGTTCTATTGTTAACGCCAAGTTATCAGTGACCAATTGCTAGGATAAGGACAAGGACAAGTCAGTAATACTTCGAACTTTTTCTCCAACCTCTTGTGGAGACTCAAGATACATGCAGAATAACAAAATTTTGTATAACTTGGGGAAGTTGGTCCTACCACCTGCTTTATTAGTTGCCACCTATTGGGGTCAACTATACCCCAATTCCGCCAGGATATGTAGTCAGTGTTTACACTGGGTTCACATTCTAGAGTCAAAAATAACCAAAAGCAAAGTTATGATGCAGAAGGAAAACATTGTTCCTTTTTTGGCTAGTGAATGATGTCATATTTGGATTTTGATTTGTTTTGAGGCAGAATATAGAGTCAAGATTTGAAATGTGGGGCTAGACCCCATTTAAGAAATTCAGATTTTAGGTACATTAAGGATGGTAGCTAAAGTCATCTCCAAGTATAGAGAAGAGGAAGAACTGAGAAACACTTAATGACAAACGGAGTTTCACTCTTCTTGCCTGGGCTGGAGTGCAATGGCGCGATCTCCGGCTCACCGCAACCTCCGCCTCCTGGGTTCAAGCAATTCTCCTGCCTCAGCCTCCTGAGCAGGTGGGATTACAGGCTACCACACCCAGCTAATTTTGTATTTTTAGTAGAGACGGGGTTTCTCCATGTTGGGTCAGGGTGGTCTCGAACTCCCAACCTCAGGTGATCTGCCCCCCTCGGCCTCCCAAAGTGCTGGGGGATTACAGGTGTGAGCCACCATGCGCGGCCGCCCATTTCCTAATTAAATTTTTGCAGTAGGATCATAGCTCTCGGAAAATAGCATAAATTTTATCTTAATCTCTAGTGCCAGAAACTGCCTGGGCGTAAACACTAGCTTGAACATCTGAACTAGAAGATAGCATAGTATTGGAATTAGAAACTTAAATTCTATTTAGGTGAAAGGATGTTTCCTCAAATTATGAACAAACTTTAATGTGTTTGAAACGGGGTATTTTTATTTTTTAAATGTATGCTGTTAATACATACTTTGGGAAAAGGAACTATATGTACTTAAGGCTGTGCTTCAGTCTTAGCTTTTGGCTTCCAGAGAAGGGCTAAGAAAACTTCCAAGGGTTAAATAATGTGTTCAGGTTTCAGTCATAGGATCTCAGTCGCAACTATTTAACTCTGTTGTTTTAACCCAACAGCAGCCAGATGAATGAGTTGGGGCCCTATTCCAATAAAAGATTATTTTGGGGCATTGGAATTTGGATTTTGTGTGTTTCTTCACTTGTCATGAAATACTGTTTTTCCCCCTAGTTATTTAAATTTTTAGCTTATGGGTTATACAGAAACAGCCAGCTGGCCAGATTTGACCTACAGGCTATAGTTTGCCAATTGTGTGCTGCTTTGGAGCTGGAAATACTGTCAGGATCATAGTTAGGTAAAATAATTGTTTCAAGTTTTTATGAGTAGCTTTTACAAATGAACATTTAGTAGAGGGAACAACACATTTGTAAGTTGTAGACCTTACGTTCTGGCTAACATTAAGATAACTTAATGCACCTAACTGAAATGTCCAGTGGGATCTTACTCATAGCCACAGGATAATTAGTGGCTTTGTTCAGGATGTATGTAACAATTTATTTACCTTTTGAAG
Seq C2 exon
GCTAAAGAACGTGCCAATGGAATGGAGCTTGATGGGCGTAGGATCAGAGTTGATTTCTCTATAACAAAAAGACCACATACGCCAACACCAGGAATTTACATGGGGAGACCTACCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136527-TRA2B:NM_004593:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.080 A=NA C2=0.641
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PU(65.3=97.0)
A:
NA
C2:
PF0007617=RRM_1=PD(32.7=40.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAAATCCTGATCCTAACTGTTGT
R:
AGGTAGGTCTCCCCATGTAAA
Band lengths:
304-1973
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)