BtaINT0087894 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021957 | LTBP2
Description
latent transforming growth factor beta binding protein 2 [Source:HGNC Symbol;Acc:HGNC:6715]
Coordinates
chr10:86192129-86193318:-
Coord C1 exon
chr10:86193175-86193318
Coord A exon
chr10:86192321-86193174
Coord C2 exon
chr10:86192129-86192320
Length
854 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
GGGGCGTCTGTCACACACAGGTC
3' ss Score
6.18
Exon sequences
Seq C1 exon
ACGTGAACGAGTGTGAGCTCATGCTGGCGGTGTGCGGGGCGGCGCTCTGCGAGAACGTGGAGGGCTCTTTCCTGTGCCTCTGCGCCAGCGACCTGGAGGAGTACGACGCTCAGGAGGGCCGCTGCCGCCCGCGAGGGGCTGGAG
Seq A exon
GTGAGCCCTGCGCCCCACCCTCACAGTGCACTCTCCCCCCCACCCCCCCTCCTCGCTGTCTGGCGTACACAGTGCTTCCGCTGCTCCAGCTGCAGGGCTGCGACGACCCTACAGGAGGCTCTAGAAGCTCTAATGCCAACTGGGGGGAGGGGGCAAGGAGCTCAGATTGAGCCTTGGTTGTTATTGTTCAGTCGCCAAGTCTGAGGTCACTCTTCGTGACCCCATGGACTGCAGCACAACAGGCTTCCCTGTCCCTCACCATCTGAGCCTTGGAGGGACCCTCAGTCAAACCCCAGGAAGCTTTTGGGTGAGGGAGGCCCAGGAACTGAGCTAAGCTCCACTCTCCCGTCCCACTCCACTCCAGAGCTGCCGGTTTCAAACTCTCAGCCCAGGACTAGGATTCAGCTGGCCTTCTCTGACTTGGGGGAAAGCTAGCAGGACCTGGAACAAGGAAGGGTGGGAGGGGCAGGGGTACAGTGTGACACAGAGGAATGGAACGGTGTACCATACCATGCTCGTATGGTGTGATGTGCCGGGGACTGGGGCCACCTCACTGCAGGGGAGGAAGGCAGGATGGTATCTTGGAAAGAGCAGGGGTGTGGCACCAGAGGAACTGGGGTCACTTCCCTGCTCTGCCACTAGGTGGCCCCTGCAAGTCACCTAGCTTCTCTAAACCTCAACTGCCTCTTCTATAAAAGAAAGCTGATGATAATAAGCTCTTCATAAGGCTTATCAAGTGAGATAGTAAGAGTACACTGTACTTTATAAATGTTTAAAATTTAAATAAATTCAAAGGCCAGGGTGCCCCAGGGGGCCATGAACAGATGTTAACAAGGGGCGTCTGTCACACACAG
Seq C2 exon
GTCCGAGTGTCCCTGAGGCCCGGCCAGGGGCACACCCACCAGGCCCTGTCCGCATGGAATGCTACTCTGGACAGAAGGACCAGACGCCCTGCTCCAGCCTTCTGGGCCGGAACACCACGCAGGCCGAGTGCTGCTGCACCCAGGGCACCGGCTGGGGAGATGCCTGTGACCTGTGCCCAGATGAGGACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021957:ENSBTAT00000029274:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.082 A=NA C2=0.154
Domain overlap (PFAM):
C1:
PF0764510=EGF_CA=WD(100=85.7)
A:
NA
C2:
PF0068312=TB=PU(85.7=55.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTGAACGAGTGTGAGCTCAT
R:
TGAGTCCTCATCTGGGCACAG
Band lengths:
334-1188
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development