HsaINT0097562 @ hg19
Intron Retention
Gene
ENSG00000119681 | LTBP2
Description
latent transforming growth factor beta binding protein 2 [Source:HGNC Symbol;Acc:6715]
Coordinates
chr14:74968144-74969637:-
Coord C1 exon
chr14:74969356-74969637
Coord A exon
chr14:74968294-74969355
Coord C2 exon
chr14:74968144-74968293
Length
1062 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGT
5' ss Score
6.84
3' ss Seq
CTCCGATTTCCTCCTCCCAGAGC
3' ss Score
8.8
Exon sequences
Seq C1 exon
AGGTCTATGCTCAGCTGTGCAACGTGGCTCGCATTGAGGCAGAGCGGGAGGCCGGGGTCCACTTCCGGCCAGGCTATGAGTATGGCCCCGGGCCCGATGACCTGCACTACAGCATCTATGGCCCAGATGGGGCCCCCTTCTACAACTACCTGGGCCCCGAGGACACCGTCCCTGAGCCTGCCTTCCCCAACACAGCCGGTCACTCAGCGGACCGCACACCCATCCTTGAGTCTCCTTTGCAGCCCTCAGAACTCCAGCCCCACTACGTGGCCAGCCATCCAG
Seq A exon
GTCTGTGTTGCTGCAAAACTGGGGAAGAGGTGGGCACCAAAGCTGTTTCACTTCCATCTCCTCCACCTGCTAGTCATATTGCCAGCAGGGTGAGGACTGGGAAGGGGAAAGACACACCAAGCCAGAGGTCCCCGTTCACGGCTCGCTTGAGACAAGTACATACGCCCAGGTCCGACCCTAACAACTCCGTCATAAACTATCACAGGGACACAAAAAGGTACAGGACACTGCCCCTGTCCCAACCTACAAGCTTCCTGTGGGGACTGAGAGAGAGAGAGAAAGCTGTTCACTGCAGTCTTTTTCTCCCTCCACGCCACCTACAGGCTGCAGAATAACCTGCTCTAAGGACACCCAGCATTCACACTTGTGACCTGAAGTGTGGATTAAGGTTTTCTAAGGACTTTAAAGGCCCACCGTGATGACTCGGTTTGTGAATGGTGCGATCCAAACACTCAGGCCTTGGAGTCTAATGAGGAAGTCAAGCCTAGCACTGTGCCATGCACACGGTACCCACCACAGGCAAAGCTACCACATCAGACTAAAACCATACCTCTGGGTAGGGTGTGGCCTTTTCCATGGGGTGGAGGGGTGCTTAGGGAGTGAAGAGGGTTAGGTAGATCTGGTCAATGTTTTGCTTTGTGTTGAGTGAGGCCCCTCTGCTACCAATTGTTCCCCACTTCCCAAAAACACGATGTGAAGGTTTAAACAAAACACCTCACCCCTTCCCCACGCCCAAACCCAAAAACTATGTAGCAACACACTCCTCGACCACCCAAACCCCAGCAGGAGCCGGGCATTGTGGAAGCAGCGAGTCTCAGCCTCCCTGGAGCCCTCATTTGAAGCCCAGAGCACCTCTCCCCATCTAAAATGACACATACTTTTTTTTTCAAGAGTACTGCCTTTTGTTCTAGCATCTTTCCACAAGAATTTTATGATCCTCTCTGCCCCCACCCCCACAGTTCCACAGGGGCACCCTTTGTCCAGAAGGGCGAGGGTCCCAGCATTAGGGAGAGTCTGGACACAGCCCTCAGCCTCCTCCTCTCTCCGATTTCCTCCTCCCAG
Seq C2 exon
AGCCCCCAGCCGGCTTCGAAGGGCTTCAGGCGGAGGAGTGCGGCATCCTGAACGGCTGTGAGAATGGCCGCTGTGTGCGCGTGCGGGAGGGCTACACCTGTGACTGTTTTGAGGGCTTCCAGCTGGATGCGGCCCACATGGCCTGCGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000119681-LTBP2:NM_000428:34
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.432 A=NA C2=0.039
Domain overlap (PFAM):
C1:
PF0068312=TB=PD(11.6=5.3)
A:
NA
C2:
PF0000822=EGF=WD(100=58.8),PF0764510=EGF_CA=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTATGCTCAGCTGTGCAACG
R:
CCATTCTCACAGCCGTTCAGG
Band lengths:
346-1408
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)