DreINT0013896 @ danRer10
Intron Retention
Gene
ENSDARG00000099137 | LTBP4
Description
latent transforming growth factor beta binding protein 4 [Source:HGNC Symbol;Acc:HGNC:6717]
Coordinates
chr18:49031774-49032740:-
Coord C1 exon
chr18:49032621-49032740
Coord A exon
chr18:49031894-49032620
Coord C2 exon
chr18:49031774-49031893
Length
727 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
AAGCATTTTTTTTCCCCCAGATG
3' ss Score
8.92
Exon sequences
Seq C1 exon
ATATTGATGAGTGCCGTCAGACACCTTCTCCATGTCAGAACGGGCTGTGTGAAAACACACTCGGCAGCTTTAGGTGTGTGTGCAGGACTGGATACAGACTTCAGGGTGGCACCTGTACAG
Seq A exon
GTATGATCAAACTCTATATACAAAAACATCTGATATCATATTAAATAACACACTACAGATTGTTGTCTGAATTTCTTTAGCAAAGATTTACTTTAAAATCAAAGTATTTTTATTTTAATTGTACATTAGTACTAATAAATAACACCTACAATAAAAAAAACTCTAATCATTAAGAGTAAATGCAATAAAAGTAATTTAGTAAGTGTGTTATCCCTACTGAAAAACAGCTTAAACCAGCATTGGCAGGTGGGCTGGTTTTAGCTGGTCAACCAAGCTGGTTTTAGAGGGATTTTTTCCATTTTCAGCCTGGTCTTAGCTGGTCAGGCTGGGAGATGACCAGCTAAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGAATTCAATCCTAACTTAAGGTTAAAACAGCTACCACAACATTATTTATAAACATGTGGCTCTTTTTGGATTCTCGGAAGCTGTAGAAATTAAACATGTGAAACAGGAAATATGTTGGGACCGTTGTTTTTGTTTACATCCCTCAAAATATGTTGCCTTGAAATGTTCTCTTCCTTGATTACACTTAAGCCACTTTCGCTCAAGGTATAAGTACAGCTTGTAAATTCTGAAGTAAACCACAAGTGCACTTTCTGTAAAATCAAGCATTTTTTTTCCCCCAG
Seq C2 exon
ATGTGAACGAGTGTGAAGATCCGTCACAGTGTCCTGGTCAGGAGTGTTTGAACTCTCAGGGATCGTATCGGTGTGTGTCCTGCAGACCTGGATTTGGTCTGAGAAATGGAGCCTGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000099137:ENSDART00000160702:16
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=95.1),PF0764510=EGF_CA=PU(0.1=0.0)
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:
ATTGATGAGTGCCGTCAGACAC
R:
CTGAACAGGCTCCATTTCTCAGA
Band lengths:
238-965
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]