BtaINT0087937 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004757 | LTBP4
Description
latent transforming growth factor beta binding protein 4 [Source:HGNC Symbol;Acc:HGNC:6717]
Coordinates
chr18:50184254-50184636:+
Coord C1 exon
chr18:50184254-50184421
Coord A exon
chr18:50184422-50184441
Coord C2 exon
chr18:50184442-50184636
Length
20 bp
Sequences
Splice sites
5' ss Seq
GAGGAGGGG
5' ss Score
-3.78
3' ss Seq
GAGGGGGTGTTGTCTCCAAGGGG
3' ss Score
2.03
Exon sequences
Seq C1 exon
AGGGTTTTCGGGAGATCTGCCCAGCCGGCCCTGGCTACCATTACTCGGCCTCCGACCTCCGCTACAACACCAGACCCCTAGGCCAGGAACCACCCCGAGTGTCCCTCAGCCAGCCCCGTGCCCCACCTTCCACCTCTCGACCACCCTCAGGTGAGCTGGTTTCTGGAG
Seq A exon
GAGGGGGTGTTGTCTCCAAG
Seq C2 exon
GGGCTGCCCCAGGCTCACCAAAAAAAGGGGAGATGATCAGGGACACCCAAATCAAGGTCTCCAATGCTGACACCCCTTCTTTACCAGGCTTTCTGCCCACTCATCGCCCAGAACCTCGGCCTGAGCCCCGGCCAGGCCCTGAGCTTCCCCTGCCTAGCATCCCTGCCTGGACTGGTCCTGGGATCCCTGAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004757:ENSBTAT00000065855:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.642 A=NA C2=0.985
Domain overlap (PFAM):
C1:
PF0068312=TB=PD(11.6=9.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
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:
TCAGGTGAGCTGGTTTCTGGA
R:
AGCCTGGTAAAGAAGGGGTGT
Band lengths:
112-132
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development