HsaINT0097616 @ hg19
Intron Retention
Gene
ENSG00000090006 | LTBP4
Description
latent transforming growth factor beta binding protein 4 [Source:HGNC Symbol;Acc:6717]
Coordinates
chr19:41123006-41125398:+
Coord C1 exon
chr19:41123006-41123130
Coord A exon
chr19:41123131-41125251
Coord C2 exon
chr19:41125252-41125398
Length
2121 bp
Sequences
Splice sites
5' ss Seq
TGGGTACGG
5' ss Score
6.54
3' ss Seq
CTGTTGTCTCCTGCTTACAGATG
3' ss Score
11.11
Exon sequences
Seq C1 exon
ATGTGGACGAATGCCGGAACCGGTCCTTCTGCGGTGCCCACGCCGTGTGCCAGAACCTGCCCGGCTCCTTCCAGTGCCTCTGTGACCAGGTTACGAGGGGGCACGGGATGGGCGTCACTGCGTGG
Seq A exon
GTACGGGACTTCAGGAGGTGGATGGGACCAAAGGGGGTGGGGGAGGTTGGTCAGGCCCTGTCCCTCCCCATATATCTGAACAAATGGGAATTTTCGGGTTGTGGAATTTAGACTTTGGAATATAAGATCATCTTCATGCCAGGCACGGTGGCTCACGCCTGTAATCCCAGTACTTTGGGAGGCCGAGGCGGGCAGATCACTTGAAGTCAGGAGTTTGAAACCAGCCTGGTCAACATGGTGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCCGGATCTGGTGGCAAATGCCTGTAATCCCAGCTACTCAGGAAGCTGAGGCACAAGAATTGCCTGAACCCAAGAGGTGGAGGTTGCAGTGAGCCAAGATTGTGCAATTGCACTCCAGCCTGGGTGACAGAGTGAGACCCTGTCTCAAAAAAAAAAAAAAAAAAAAAAAAATCAGAACTGTTGTAGTGGCTGGTGACAGAAACCTGACTTAATCAGGTTTTATTTTTGTGTGTGTTCTTTTAAAAATGTATAAAGTATAAATGTATAAAGTACTAATCTTAAGTGTTCATAAACATTAATCTTTCCTAACATTTTATGAGGAAAATTTCTAAACACAAAGCAAATTGAGAGAATCATAGAATGAACACCTACCTACTCATGATCTAGATTATATTATCATTTTATTACACTTGCTTCCTCACATATCTATCCATTAATCCATCTAATTTTTTGGACAGAGTTAAAAGTAAATTGCAGGCACCAGTCTGCTTCCCCATAAATTCTTCAATATGCATATCACTAACCAGAATTCAATATGTGTTTACCAATGTATTCTTCTCTTCTCTCTTTTTTTTTTTTACTTTGAGGTGGGGTCTTGCTCTGTTGCCCAGGCTGGAGTGTGGTTGTTTGATCATAGCTTACTGCAGCCTCTAACTCCTGGGCTCAAGCCATCCTCCCTCCAGAACTGAGCTTCCGAGTAGCTGCTACCACAGGCACACGCAACCACGCCCAGCTAATGTTTTTAATTTTTGTAGAGATGAGTTTTTTTTTTTTTTTTGGAGACAGAGTTTTGCTCTAGTTGTCCAGGCTGGAGTGCAATGGCATGATCTTGGCTCACTGCAACCTCCACCTCCCGGGTTCAAGCAATTCTCCTGCCTCAGCCTCCCAAGTAGCTGAGATTACAGGTGCCCACCACTATGCCCAGCTAATTTTTTGTACTTTGAGTAGAGATGGAGTTTTGCCATGTTGGCCAGGCTGGTCTTGAACTCCTGACCTTAGGTGATCCGCCCACCGTGGCCTCCTAAAGTGCTGGGATTATAAGCATGAGCCACCACGCCTGGCCTGTAGAGATGAGTTATTGCTCTGTTGCCCAGACTGGTCTCAAACTCCTGGCTTTAAGCAACCCTCCCTCCTTGGCCTCCCAAAGCACTGGGATTACAGGCATGAGCCATTGTACCCTACAGATATTTTCATTCAACGTTCAATTTATATACAGTGAAATGCAGCAATCTTAATTATACATTCTGTAAATTTTCACAAATGCAAACACAACAGGTTTTATTTCTTTAAAGGGAATTAAAACTATAAAGTCTTGGGATATATTTGAACTCCAGGCATAACTGGATCCAGGAATTTTAACAAGGCTATTTCTATCTTCTCTGAGTTCTGCTTTCTTCTATTGCATGATTTTCAGGCAGATTATTTTTCACAATGATGAAGGTGGCCCTAGAACCTCTGGGCTAACATCTCCAGTGGGCCACCCGAGAGCTAAAAAGGGAGGTTTTTTTTTCAATATTTCTAGCAAAAGCGCCAGGCCTGGCTTTGATTGACCCAGCATGATCACTGCCTATGTCTGAACCAGAGAAATGCCGTCATCTGTTTGGTCATTCCTGGAACTTGTGCCCACCTCTCAGAGTAGATATAGCCCTACTCAAAGAACAGGATTGAAAATAGAGGAGCACAGGGTTCCCAAGGGAAATTCAAGGTTTCTCACTAGAAGAAAAACAGATGATGGGATCTGGGCCATTAAATATACACATTATATTTGAAAGCTGAGACTTTCGGACCTTTGGAATCATAGAAGCTTATAACCACTGAGTCCCTCTCCCCTGTTGTCTCCTGCTTACAG
Seq C2 exon
ATGTGAACGAGTGTGAAACACTACAGGGTGTATGTGGAGCTGCCCTGTGTGAAAATGTCGAAGGCTCCTTCCTCTGTGTCTGCCCCAACAGCCCGGAAGAGTTTGACCCCATGACTGGACGCTGTGTTCCCCCACGAACTTCTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000090006-LTBP4:NM_003573:24
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=0.158
Domain overlap (PFAM):
C1:
PF0764510=EGF_CA=PU(72.5=96.7)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=84.0),PF0764510=EGF_CA=PU(0.1=0.0)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)