HsaINT0097603 @ hg38
Intron Retention
Gene
ENSG00000090006 | LTBP4
Description
latent transforming growth factor beta binding protein 4 [Source:HGNC Symbol;Acc:HGNC:6717]
Coordinates
chr19:40608484-40609661:+
Coord C1 exon
chr19:40608484-40608603
Coord A exon
chr19:40608604-40609529
Coord C2 exon
chr19:40609530-40609661
Length
926 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGC
5' ss Score
4.86
3' ss Seq
TGGCTGACTGGACCCCCCAGGTC
3' ss Score
5.35
Exon sequences
Seq C1 exon
GCTTTCTGCCCACCCATCGCCTGGAGCCCCGGCCTGAACCCCGGCCCGATCCCCGGCCCGGCCCTGAGCTTCCCTTGCCCAGCATCCCTGCCTGGACTGGTCCTGAGATTCCTGAATCAG
Seq A exon
GTTTGCTAGAAAGAACTGAGGGCATTGGGCCTGCAGCAGTGGCTCACGCCTGTAATCCCAGCATTTTGGGAGGCTGAGGAGGGTGGATCACCAGGTCAGGAGTTCGAGACCAGCCTGGCCAACATGGCGAAACCCTGTCTCTACTAAAACTACAAAAATTAACTGGGCGTGGTGGCAGATGCCTGTAATCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATCACTTGAACCCAGGAGGCAGAGGTTGCAGTGAGCTGAGATCGTGCCATTGCACTCCAGCTTGAGCGACACTCCATCTCAAAAAAAAAAAAAAAAAAAGAATTCAGGGCATTGATGGGGGTATTACAGGTGGGATTCTGGGGTAAAAGACTCCAAGGTGAAGATTCCAGGTTACAGCAAATAGGAATGGTATGGGCAGAGATAAGCGTTTGAAGGGTTGGGTGGTAGTTAGATCAGGAGCTGGAGTCACAGTTGGGCTCTTCTGTGTCAATCGAGCAAGCCATTTAACCTCTGAGACTCAGTTTTCTCATTGGTAAAATGGGGATGGTTGTTGAGATGCCTCTGAAGTGTCTGACACCTAGTAAGTGCTCAGATAAATACTTATGGTAGATAATTATTTTTCATTATCTAATATTAGATAATTATTTCTCAGGTAGGGCACTAAGAATGTATCTCAGGCGGAGGGTTGGAGAGCAAACTATTCAAAGCCAGAGACCTTGGGGTGGCATGATGAGGGGATTCGGCCAAGGATCTGATGAGAACGTTCCAGGATAAAAAAGATGGAGATCAGAAGAAGACTGGGCTTGCTTGGGGAGGAGACATCCATGAAGGTGTTTTATGGATGTCTCCGGGGGTGGGGGTTTTACTGGGATGAAAGGAACGGAGGATTCAGAGATGGGGGAACCCTGGCTGACTGGACCCCCCAG
Seq C2 exon
GTCCCTCCTCCGGCATGTGTCAGCGCAACCCCCAGGTCTGCGGCCCAGGACGCTGCATTTCCCGGCCCAGCGGCTACACCTGCGCTTGCGACTCTGGCTTCCGGCTCAGCCCCCAGGGCACCCGATGCATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000090006:ENST00000308370:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.089
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=82.2),PF0764510=EGF_CA=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTTCTGCCCACCCATCG
R:
GCTGAGCCGGAAGCCAGA
Band lengths:
230-1156
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
- Pre-implantation embryo development