BtaINT0087920 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006747 | LTBP3
Description
latent transforming growth factor beta binding protein 3 [Source:HGNC Symbol;Acc:HGNC:6716]
Coordinates
chr29:44396722-44397411:-
Coord C1 exon
chr29:44397082-44397411
Coord A exon
chr29:44396925-44397081
Coord C2 exon
chr29:44396722-44396924
Length
157 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCA
5' ss Score
7.87
3' ss Seq
CGCCGTGCCCCGCCCCCCAGTGC
3' ss Score
8.13
Exon sequences
Seq C1 exon
TGGTGTGCCCCCTGCCCTGTATGAACGGCGGCCAGTGCTCCTCGCGAAACCAGTGCCTGTGTCCCCCGGACTTCACGGGTCGCTTCTGCCAGGTGCCGGCTGGAGGAGCTGGCGGAGGCGCTGGCGGCTCAGGCCCTGGGCTTGGCCGGGCCGGGGCCCTGTCCACGGGCGCGCTGCCGCCCCTGGCTCCAGAAGGCGAGTCTGTGGCCAGCAAGCACGCCATGTACGCGGTCCAGGTGATCGCCGATCCACCAGGGCCCGGGGAGGGGCCTCCTGCCCAGCATGCGACGTTCCTGGTGCCCCTCGGGCCAGGACAGATCTCAGCGGAAG
Seq A exon
GTACCAGGCAACGGGCAGACCCCGGGAGGCCGAGGTGGGCGGGCACTGGCCGGGGTGGGCAGGACCCGGGCGGGGCCAGCCCTGGAGGAGCTCCTCGCCACCACCTGCCATCCGGCGCTGCGGGGCAGCCCTGAAGCCGCCGTGCCCCGCCCCCCAG
Seq C2 exon
TGCAGGCCCCGCCCCCCGTGGTGAACGTGCGCGTCCACCACCCGGCCGAGGCCTCAGTCCAAGTGCACCGCATTGAAGGGCCCAACGCCGAGGGCCCGGCCCCCTCCCAGCACCTGCTGCCGCACCCCAAGCCCGCGCATCCCCGGCCACCCACCCAGAAGCCCCTGGGCCGTTGCTTCCAGGACACGCTGCCCAAGCAACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006747:ENSBTAT00000008880:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.631 A=NA C2=0.882
Domain overlap (PFAM):
C1:
PF0000822=EGF=WD(100=24.3)
A:
NA
C2:
PF0068312=TB=PU(2.3=1.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCATGCGACGTTCCTGG
R:
CAGCGTGTCCTGGAAGCAAC
Band lengths:
243-400
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]