BtaINT0087947 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004757 | LTBP4
Description
latent transforming growth factor beta binding protein 4 [Source:HGNC Symbol;Acc:HGNC:6717]
Coordinates
chr18:50189651-50190191:+
Coord C1 exon
chr18:50189651-50189776
Coord A exon
chr18:50189777-50190068
Coord C2 exon
chr18:50190069-50190191
Length
292 bp
Sequences
Splice sites
5' ss Seq
TCGGTCGGT
5' ss Score
3.52
3' ss Seq
TTGCTGACACTGTCCCGCAGACG
3' ss Score
8.41
Exon sequences
Seq C1 exon
ACGTGAACGAGTGCCTGGAGGGCGACTTTTGCTTCCCCCACGGCGAATGCCTCAACACCGACGGCTCCTTCGCCTGTACTTGTGCCCCCGGCTACCGGCCCGGACCCCGCGGAGCCTCTTGCCTCG
Seq A exon
GTCGGTACCCACGCCGGGCCTGAACCGGGAAAGGGTGGGGAAAGGGAGGGGCGGAGTTGGAGAGGAAAGGGGGAAAGGGCGGAGTCTGGATAAAATGGGCAGTGAATGGACAGGCTCGAGCCAAGCTCGTCGGGGAGGTGGGGCTTGCAGGAAAGGGAGGAGCCTAAGGCAGGTGGGGGAAGGCGTTAGAGTCTCGGAGCCGTAGAGGCCGGGAAAAGGCGGTGGAGGGGCGTGGTCTGGAATGTCAGGCAGAGAAGGAGACTGGCTTGCGGTTGCTGACACTGTCCCGCAG
Seq C2 exon
ACGTGGACGAATGCAGCGAGGAGGACCTCTGCCAGAGCGGCATCTGTACCAACACCGACGGCTCTTTCGAGTGCATCTGTCCTCCGGGACACCGCGCCGGCCCAGACCTCGCCTCCTGTCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004757:ENSBTAT00000065855:20
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=95.3),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=95.2),PF0764510=EGF_CA=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTGAACGAGTGCCTGGAG
R:
GAGACAGGAGGCGAGGTCTG
Band lengths:
247-539
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development