DreINT0013903 @ danRer10
Intron Retention
Gene
ENSDARG00000099137 | LTBP4
Description
latent transforming growth factor beta binding protein 4 [Source:HGNC Symbol;Acc:HGNC:6717]
Coordinates
chr18:49022225-49022513:-
Coord C1 exon
chr18:49022370-49022513
Coord A exon
chr18:49022292-49022369
Coord C2 exon
chr18:49022225-49022291
Length
78 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACA
5' ss Score
8.88
3' ss Seq
TGACAGTACTTTCTGTCCACTAA
3' ss Score
-5
Exon sequences
Seq C1 exon
ACATAAACGAGTGTGAGGCGATGCAGGGTGTGTGTGGATCTGCGCGCTGCTGGAATGTCGAGGGCTCGTTCACGTGTGAATGTGAGAACGGACAGGAGGAATTTGACCCTATTGCTGGCCGCTGTTTGAGCAGAGAGGGCACAG
Seq A exon
GTAACACACACACACACACACACACACACACCTGACATGGCCTTCTGCTGTTTTCTAATGACAGTACTTTCTGTCCAC
Seq C2 exon
TAAACCTAACCCACAGTGATAATGTTTCAGTGCTGCCCTCTGCTGGCAATGCAAGAAATACTACTAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000099137:ENSDART00000160702:24
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=0.130
Domain overlap (PFAM):
C1:
PF0764510=EGF_CA=WD(100=85.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TAAACGAGTGTGAGGCGATGC
R:
CAGAGGGCAGCACTGAAACAT
Band lengths:
183-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]