HsaINT0172682 @ hg19
Intron Retention
Gene
ENSG00000125733 | TRIP10
Description
thyroid hormone receptor interactor 10 [Source:HGNC Symbol;Acc:12304]
Coordinates
chr19:6744811-6746572:+
Coord C1 exon
chr19:6744811-6745005
Coord A exon
chr19:6745006-6746462
Coord C2 exon
chr19:6746463-6746572
Length
1457 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGG
5' ss Score
5.87
3' ss Seq
GCCCTCTACCCACCTTGCAGACA
3' ss Score
8.59
Exon sequences
Seq C1 exon
GACTCCCACGTCCTTATAGAGCTGCACAAGTCAGGTTTTGCCCGCCCGGGCGACGTGGAATTCGAGGACTTCAGCCAGCCCATGAACCGTGCACCCTCCGACAGCAGTCTGGGCACCCCCTCGGATGGACGGCCTGAACTCCGAGGCCCGGGTCGCAGCCGCACCAAGCGCTGGCCTTTTGGCAAGAAGAACAAG
Seq A exon
GTGGGGGCCGGGACCCTTGGGATGGTGGGGGAGAAGGACAGTGAAGTGGGGACAGTGGGGCCCCTATTGAGTCAGCCCCAGCCGCCTGAACGCCGAGTCTCGGGCAGGAATTTTCCTCTTGGCTGCCAGCCCGGACTGGAGGGAAGGAAGGCGGCCGATTGGCCTGGGAGTCCCCCGAGGCGAAGGCGGGGGCAGGGTGGGGAGGTGGGGAGGTCCGTGGCGTTTGTCTGCTGCTTCTCGGGATGCTGGGAGAAAACCTGCTGGTGGAATTCAGGGCTGGCCTGAGGGCTGGTGACACCATCCCTGGGGACTCCCCGAGTTTCTCTCTCCATCCTGCTGATGGGACTCTGGGAGCCGCCCTGCATGTCTTGCTTTCTTGGGTTTTTGGATTTTAATATACCTTAGCACCCTTGGTTTATACCTTTGATTTATACTTTGGGTCCCTCTTCACTTACACTCTCATACCTCTCCTTGACTTAACACCTGTGATCCCCGAGCTTAAACTTCTGATGCCCCTAACCCCTCTCATTTTCCTGCCTTCCACTCCCTCTCGGCTTGTGGTTTTATTTTTGTTTATTTATTTTTGTCCTCTGTGGCCTCTTACCTGTCTGAGACCTTGATTCCTGCATGCGTCTTCTAGACTGTCAGCCCAGAAAGCTAAGTGGACAGAGAGACATGGGCCTCCCTGCCTCCTGGACCCATGCTTGCTCCCGGACATAACATTCCAGAGACCTAGGAGATACCGGGGGAGTGAGAGTTCTGGCTTTCGGGCTTACAGTTCAACATCCTCCCCGCCACCTTCCAGATTTTTTTGTGTCGCTCCTGCATGCGTTTTCTCTGTGTGGTTGTGCATCTTGAGTTGTGGTTTTCTTACCGTTTTTTTTCTTTCTCCATTTTGTTTTTCCTTTTTCCTTTTTTTGCGTCCATCCGTCCATCCGTGCGTCCATCCCTCCGTCCATTCGTCCTCACTCTCTACATCCTCCTATGCCCCCCCACCCCTTCAACCTATCCCCCTCCCCGGCCCCCGCCGGTAGCCTCGCCCCCCACCCCTCTCCCCCCTGGGGGGCCCCGTACCCTCGGCATTGCCTAACGGACCCCCGTCCCCCCGCTCCGGCCGTGACCCCTTGGCCATACTGAGCGAGATCAGTAAGTCGGTCAAACCGAGGCTAGCATCCTTCCGCAGCCTTCGAGGCAGCCGTGGGGTAAGTGAGGCCTCGGGGCAGGAGGAGGTGGTGGCCCTAGCCTGCCCAGCGGCGGGTGGCGGGACCCTGGGCTCGCTTCCTGCCGCTGGCTGGGCCCCTCTTCCCTGGTTGCCCAACCCAGACCTGCTTTGCTCTGTGCATGGCTTCGCTGTCAAGAACCATGGCTGGGGAAGGGAGTGAAATATCTCAGACGGGTGCAGAGTCTGGCAGGCTAGACTCCTTGATCCCAAATTCAGCCCTCTACCCACCTTGCAG
Seq C2 exon
ACAGTGGTGACCGAGGATTTTAGCCACTTGCCCCCAGAGCAGCAGCGAAAACGGCTTCAACAGCAGTTGGAAGAACGCAGTCGTGAACTTCAGAAGGAGGTTGACCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000125733-TRIP10:NM_004240:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.815 A=NA C2=0.983
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF143891=Lzipper-MIP1=PU(34.5=78.4)
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCACGTCCTTATAGAGCTGC
R:
CTCTGGTCAACCTCCTTCTGA
Band lengths:
302-1759
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)