DreINT0091482 @ danRer10
Intron Retention
Gene
ENSDARG00000035682 | ltbp3
Description
latent transforming growth factor beta binding protein 3 [Source:ZFIN;Acc:ZDB-GENE-060526-130]
Coordinates
chr5:36969928-36970264:+
Coord C1 exon
chr5:36969928-36970047
Coord A exon
chr5:36970048-36970135
Coord C2 exon
chr5:36970136-36970264
Length
88 bp
Sequences
Splice sites
5' ss Seq
AGGGTTTGG
5' ss Score
0.05
3' ss Seq
GTTCACTGTTCCCTTCTCAGACA
3' ss Score
9.02
Exon sequences
Seq C1 exon
ACATAAACGAGTGTAAACGAGCTGCCAATTGTCAGCGAGGGCGCTGTATCAACACGATGGGCTCATACCGCTGCGAGTGCCAGAAAGGATACACGCTCGAGAATGGGCGCCACTGCAAGG
Seq A exon
GTTTGGGATTTCACACTTTTTACATCAGCCAATTCCTCCTCTCAGTCTTGGCCTTCTTATTCACCCTTGTTCACTGTTCCCTTCTCAG
Seq C2 exon
ACATAAATGAGTGTGATGGGGAGAGGAGTCTCTGTCAGCCGCACGGCGTATGTGAAAACCGACAAGGTGGATACGTGTGCGTGTGCAACGATGGTTTCAGACTGTCTGAAGACAAACACAGCTGTGAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000035682:ENSDART00000048107:20
Average complexity
IR
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:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGAGTGTAAACGAGCTGCCAA
R:
TCGGTTTTCACATACGCCGTG
Band lengths:
175-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]