BtaINT0087887 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021957 | LTBP2
Description
latent transforming growth factor beta binding protein 2 [Source:HGNC Symbol;Acc:HGNC:6715]
Coordinates
chr10:86197393-86198066:-
Coord C1 exon
chr10:86197941-86198066
Coord A exon
chr10:86197519-86197940
Coord C2 exon
chr10:86197393-86197518
Length
422 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACC
5' ss Score
9.24
3' ss Seq
TGGCTGACTGTCTGCCCTAGACC
3' ss Score
7.77
Exon sequences
Seq C1 exon
ATGTCGACGAGTGTGCCATCCGGGCCTCGTGCCCCACGGGCCTCTGTCTCAACACGGAGGGCTCCTTCACCTGCTCGGCCTGTGAGAGTGGGTACTGGGTGAATGAGGATGGCACCGCCTGTGAAG
Seq A exon
GTAACCCTGGGAAGGGAGGTGGCCAAGGGTGACTGAGAACACAGGCCGTCAGACCTCCCAAAGAACCCTCCGTTTGTCCTCTGGTTTGGGGTTGATGCTGGGGGTCTCCAGACTAGGCGAGAGGACTTTGTGAATGGACTTGAGCTTCTGTTTTCTCCATGAGGACAGAAAGAGAAGGGAGTCACAGAGACAAGAGGGAAGGAAGCTCATGGCCGAGCCGCCCCAGAAGCATCCCCGGGGAGAGGGTACGGGGGTGGCCTAGTAAGAGGCCCAGAGCCAGGGGCTCCCCTTCCCCGGGGGGCCCACAGAGTCCAGCAAGCTCAGAGAGGAAACCAGAGGCGCAGGGTGGTTCTGGCCTGGCCAGGTGGAGGGAGGCATCCCCGGGCCCGCCGGGTGACTGACTGGCTGACTGTCTGCCCTAG
Seq C2 exon
ACCTAGATGAGTGCGCCTTTCCTGGAGTCTGCCCGTCTGGAGTCTGCACCAACACCGCCGGCTCCTTCTCCTGCAGGGACTGCGAGGCGGGCTACCAGCCCAGCGCCCTGGGCCACACCTGCGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021957:ENSBTAT00000029274:21
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=95.3),PF0764510=EGF_CA=PU(0.1=0.0)
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGTCGACGAGTGTGCCATC
R:
TTCGCAGGTGTGGCCCAG
Band lengths:
251-673
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development