BtaINT0087946 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004757 | LTBP4
Description
latent transforming growth factor beta binding protein 4 [Source:HGNC Symbol;Acc:HGNC:6717]
Coordinates
chr18:50175195-50175548:+
Coord C1 exon
chr18:50175195-50175253
Coord A exon
chr18:50175254-50175409
Coord C2 exon
chr18:50175410-50175548
Length
156 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
GTCCCTGGCTGTCTCTGAAGCCT
3' ss Score
5.2
Exon sequences
Seq C1 exon
TGCTCCTGCTTGTCGCTGCTGTCCAAGCCGATCGCCCAGGAGAAGCCGCTGCTTTAGAG
Seq A exon
GTGGGTTCTTGTAGGCGGGGTATAGGTTGGAGGGGAAAGATGGTAGAAGCAGAGGAGCTGGGGGTCCCTTCCTCATCCCTCACTCCATCTGGAGAGCTGGATGAAAGAAGAACTCGGTTGCCTCCTTTTCCACTTAGTCCCTGGCTGTCTCTGAAG
Seq C2 exon
CCTCCTGCAGGGTCCGGAGCTGCCGGCCCGAAAAGTGTGCAGGCCTTCAGCGTTGCCTGGCTCCAGGGCCCCCAGAGCTGCAGAGCGCCAGCCCCAGCGTGAGGAAGAGACAGGTGTCCCTTAACTGGCAGCCACTGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004757:ENSBTAT00000065855:2
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=0.170
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCTGCTTGTCGCTGCTG
R:
GTCAGTGGCTGCCAGTTAAGG
Band lengths:
196-352
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development