DreINT0013902 @ danRer10
Intron Retention
Gene
ENSDARG00000099137 | LTBP4
Description
latent transforming growth factor beta binding protein 4 [Source:HGNC Symbol;Acc:HGNC:6717]
Coordinates
chr18:49022370-49023443:-
Coord C1 exon
chr18:49023318-49023443
Coord A exon
chr18:49022514-49023317
Coord C2 exon
chr18:49022370-49022513
Length
804 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
TATTGTGTGTGTCTCCGTAGACA
3' ss Score
10.83
Exon sequences
Seq C1 exon
ACGTGAACGAGTGTGCCAACGAGACGGTGTGTGGAGCTCATGCCTTCTGCCAGAACCTCATCGGCACCTACCACTGTCTGTGCGACCAGGGTTACGAGTCCACCGGAGATGGCAAGATCTGTGTGG
Seq A exon
GTGAGGGAAACACTGTCTTTCACAACAACAACACTGTAAAACAATAGACACTACCTGGCTAAAGCCTCAGTTGCAAGAGCAACACATAATAACTTGACTTCTAGTTGATCATCAAGTGGCAGAAGGTGGATCCTTCTGCTGAATCATCTGTTGATCTGCATCCCAATCATCACCAATACTGCAGAAGACCTACTCATATATGATCAAAATATTTCCTAAAGATTTATAATGAAGAAATTTAAAGAAATACTTAGTTCTAAAATACATATGTATTACATCATATATCATTCATTCGTTTTCTTGTCGGCTTAGTCCCTTTATTAATCCAGGGTCGCCACAGCGGAATGAACCGCCAACTTATCCAGCAAGTTTTTACGCCTCGGATGCCCTTCCAGCCGCAACCCATCTCTGGGAAACACCCACACACTCATTCATACACACACACTCGCCACAGCGGAATGAACCGCCAACTTATCCAGCAAGTTTTTACACCTCGGATGCCCTTCCAGCCGCAACCCATCTCTGGGAAACACCCACACACTCATTCATACACACACACTCGCCACAGCGGAATGAACCGCCAACTTATCCAGCAAGTTTTTACGCCTCGGATGCCCTTCCAGCCGCAACCCATCTCTGGGAAACACCCACACACTCATTCATACACACACACTCGGTTACTCTTATTTATTAGTTTATTTTTACTTGTGAAAATTTACACTACAAGGTGCAAATTCGCAACATGTAAACCCTCTTCCCTCACAAAGGAAGGTGAGATGTATTGTATTGTGTGTGTCTCCGTAG
Seq C2 exon
ACATAAACGAGTGTGAGGCGATGCAGGGTGTGTGTGGATCTGCGCGCTGCTGGAATGTCGAGGGCTCGTTCACGTGTGAATGTGAGAACGGACAGGAGGAATTTGACCCTATTGCTGGCCGCTGTTTGAGCAGAGAGGGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000099137:ENSDART00000160702:23
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=95.3),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=85.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGTGAACGAGTGTGCCAAC
R:
CTGTGCCCTCTCTGCTCAAAC
Band lengths:
270-1074
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]