HsaINT0097579 @ hg19
Intron Retention
Gene
ENSG00000168056 | LTBP3
Description
latent transforming growth factor beta binding protein 3 [Source:HGNC Symbol;Acc:6716]
Coordinates
chr11:65309071-65310695:-
Coord C1 exon
chr11:65310576-65310695
Coord A exon
chr11:65309200-65310575
Coord C2 exon
chr11:65309071-65309199
Length
1376 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGG
5' ss Score
9.26
3' ss Seq
GCGCTACTCTTGCCCCGCAGACA
3' ss Score
9.96
Exon sequences
Seq C1 exon
ACATTGATGAGTGTGACTTCCCTGCAGCCTGCATTGGGGGTGACTGCATCAATACCAATGGCTCCTACAGATGTCTTTGCCCCCAGGGGCATCGGCTGGTGGGTGGCAGGAAATGCCAAG
Seq A exon
GTATGGGGGACTGGCTGAGGGTTCCTGAGGGATGTGGCAGGGAGCAGTAATTCCCTAGACACACTGTGGCCTTTCTCCATCCATCCATCCACCCATCCAACCATCCTTCATCCATCCATCCATCCATCTATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCTTCTATCCATCCATCCTTCCATTCATCCTTCCACTCACCCACCCATCCATCTGCTCAGCCTTCCAGTCTTTCACCTAGAATAACAATGATCACAGTAAACATGACAGTTAGTGCTATCGTGGTGCTTACTATGTGCCAGGCACTCTGTTAAGCTCTTTACAGATATTAATGTATTGGTCTTCCCCATCAACTCACCCATACACATGCATTCATCCAACAAAAGTTTAGGCTGAGTGCAGTGGCTCAGGCTGGGGGCGGTGGCTCATGCCTGTAATCCCAGCACTTTGGGAGGCTGAGGCGGGCGGATCATGAGGTTAGGAGTTCAAGACCAGCCTGGCCAATATGGTGAAACCCCATCTCTACTAAAAATACAAAAATTAGCCGGGCGTGATGGCGCACGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCAGAAGAATCGTTTGAAGATGGGAAGCGGAGGTTGCAGTGAGCCGAGATCACGCCACTGTACTCCAGCCTGGGCAGAGAGTGAGATTCCATCTCAAAAAAAAAAAAAAAAAAAAAAAAAGTTTATTGAGCACCTACTATTTTCCAGGTTCTGTGCTTTGTACTAGGTAATCAACAATCACCCAGGGCTCCCAGCTAGGGGAGGCCAACATGTAAACTGATTCTGACAGTTCAGGGTCCTGGGTGCCAAGAAAGGTATAGACTAATGATTAATTGCAATGGGGAGGTGAATGTTGAACTGGACTGAAACGTAAGTAGGAGTTCCCTAGGCATGGGAAAGGCAAGGCACGAGAAGTCATTCCAGGACCAAAGAGCAGTAATTGCAAAGCATAGAGATCTGGAAGGAGCTAGTTGTGTTTACAGAGGAGGGGAGGGTGCCCTGAGCACAGAGTTGGGGAGTGGAGGGTGGTCTAGAGTAAGGCGTGATGAGACCTAAAGGTATCGGAAGCTCAATTGCATTTGAGGCCTTTCCATTTGGGCTTCTGATACTTTTAGGTTTTGTAAGGTTAGTGGGAGCCACTGAAGGTGTTATGAAGGACAGCAGCTAATGTCCACATGCACATTCAGACACATGCACAGACACAGCAGACTTCCTGCTGTACATACTTTGAAACCAAAGTGGAAATTCAGGTTCTGAACTTGTGTGAGGCCCTTGAGGTGCAGCCCCAGGGAAAGAGGGGCTGGGTTTCCAGCTGCGCTACTCTTGCCCCGCAG
Seq C2 exon
ACATAGATGAGTGCAGCCAGGACCCGAGCCTGTGCCTTCCCCATGGGGCCTGCAAGAACCTTCAGGGCTCCTATGTGTGTGTCTGCGATGAGGGCTTCACTCCCACCCAGGACCAGCACGGTTGTGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000168056-LTBP3:NM_001130144:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0764510=EGF_CA=WD(100=95.1),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=95.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGATGAGTGTGACTTCCCTGC
R:
CCGTGCTGGTCCTGGGTG
Band lengths:
238-1614
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)