HsaINT0097611 @ hg19
Intron Retention
Gene
ENSG00000090006 | LTBP4
Description
latent transforming growth factor beta binding protein 4 [Source:HGNC Symbol;Acc:6717]
Coordinates
chr19:41105103-41105462:+
Coord C1 exon
chr19:41105103-41105161
Coord A exon
chr19:41105162-41105307
Coord C2 exon
chr19:41105308-41105462
Length
146 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
TCCCCTCCTTCCCCACTTAGTCC
3' ss Score
9.17
Exon sequences
Seq C1 exon
CGTTGCTGTTTGTCGCTGCTGCCCGGGCCAGACGTCTAGGAGGAGCCGCTGCATCCGAG
Seq A exon
GTGGGTTCTGGAAGATGGAGTATGAGTAGGGGGCAAAAGGGAATAGGAGGAGAGGGGCAGGGAGCTCCCCATCCCTCCCCTCATCCCAGTGGGAGAGCTGGATGCATTTGGTAGAGAAGTACTTGGTCCCCTCCTTCCCCACTTAG
Seq C2 exon
TCCCTGGCTGTCTCCGAAGCCTTCTGCAGGGTCCGAAGCTGCCAGCCCAAAAAGTGTGCAGGCCCCCAGCGGTGCCTGAACCCAGTGCCTGCAGTGCCCAGTCCCAGCCCCAGCGTGAGGAAGAGACAGGTGTCCCTCAACTGGCAGCCACTGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000090006-LTBP4:NM_003573:2
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.277
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
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:
GTTGCTGTTTGTCGCTGCTG
R:
GTCAGTGGCTGCCAGTTGAG
Band lengths:
213-359
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)