BtaINT0087901 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021957 | LTBP2
Description
latent transforming growth factor beta binding protein 2 [Source:HGNC Symbol;Acc:HGNC:6715]
Coordinates
chr10:86188066-86189843:-
Coord C1 exon
chr10:86189475-86189843
Coord A exon
chr10:86188216-86189474
Coord C2 exon
chr10:86188066-86188215
Length
1259 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
3' ss Seq
CTCTGACTCCCTCCTCCCAGAGC
3' ss Score
8.84
Exon sequences
Seq C1 exon
AGGTCTACGCTCAGCTCTGCAATGTGGCCCGGATCGAAGCTGAGCGGGAGGCCGGGATCCACTTCCGGCCCGGCTATGAGTACAGCCCGGGGCCGGATGACCTGCACTATAGCCTCTACGGCCCAGACGGGGTCCCCTTCTACAACTACCTGGGCCCCGAGGACGCCATCCCCGAGCCACTCTTCCCCAGCACGGCTGGCCGCCCAGGGGACCGCATACCGCTCCCTGAGCCTCCCCTGCAGCCCTCAGAACTCCAGCCCCACTATGTGGCCAGCCACCCAGGTCTGTGTTGCTGCAAAAACGGGGAAGAGGTGGGCTCTGAAGCAGTTTCACTTCCATCTTCTCCATCTGCTCATCACTGTCAGCAGG
Seq A exon
GTGAGGACAGGAAAGGGAAAAACCCACCCAGCCCTTTCACGGGTCACCCAAGGGACAGGTGCAAACAACCCCCTCTGACGGACTAACTAACACAGGGGACGCTAAGACGTACAGGACACCATCCCAACCTCAAAGCTGCTCGTGGGAGCTGAGAGAGGGGCCAGCAGCACACTCCTCCCACACCAAGTACAGTGTGCAGAACACGCTGCTCTACAGGTTCAAACCTGTGACCCCAAGTGGGAATTGTTGTTGTTCAGTCACTAAGTCATCTCTGGCTCTTTGTGACCCCATGGACTGCAGCACACCAGGCTTCCCTGTCCTTCATTATCTCCCTGAGTTTGCTCAAACTCATGTCCATTGAGTCGGTGATGCCATCCAACCATCTCATCCTCTGCCATCCCCTTCTCCTCCTGCCTTCAATCTTTTCCCAACATCAGGGTCTTTTTCCAGTGAGTCAAGCTCTTCGCATCAGGTGGCCAAAGTATTGGAGCTTCAGCTTCAGCATCAGTTCTTCCAATGAATATTCAGGGTTGATTTCCTGTAGGATTGACTGGTTTGACCTCCTTGCTACCCAAGGGACTCTCAAGAGTCTTCTCCAGCACCACAGTTTGAAATGGGAATTAAGGATTTCTAACCCCTTTAAAGGCCCACTGTGGTGACCTGGTTCGTAAGTGGCAATGACCCCAGCACTCAGGACTTAGATTCTAATAAGGAAGTCGGGCTTGGCATCTGTGCAGTGGTGCTTGCCACGGGCACAGCCACAGTATCAGACTGATCAAAACTACACTGAGGTTAGGAGGAGGGTCTTTTCCAGGGGAGGCGAGTTACTTAGAGAAAGAAGAGGGTTAGGCAGAACTAGGAGCAGTTTTGCTTTATGGTGAGTGAGGGTTGTCCCTTTTGCTACCAGTCCTGTCCACCCCCAAAAAGCTATGTGAAGATTTTACCGTAACATCCTGCCACTAACCACAACAAAGTCAAAACTATACAGAGATACCGAAGTGCTCAGGATCCCTGGTGTTGTGAAAGCAGTGAGTCCCTACCTCCCTGGAGCCTCATTTAAAGCAAGCATGTTTCCCCATCTAAAAATGACACATAATTATTTTTTACGGGTATTGCCTTTTGTCTCACCATCTTTCTGTGACAGTGTTATAACCCTCCCCACCCCAGGAGTTCATTAGGCTCCTCTGAGCAGAGGGTAAGGGCCCCAGGGTGGGGTATGAGACCTCAGCCCCCCTGGCTCTCTGACTCCCTCCTCCCAG
Seq C2 exon
AGCACCAGGCTGGCTTCGAAGGGCTCCAGGCAGAGGAGTGCGGCATCCTGAATGGCTGTGAGAATGGCCGCTGCGTGCGCGTGCGCGAGGGCTACACCTGTGACTGCTTCGAGGGCTTCCAGCTGGACACAGCCCACATGGCCTGTGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021957:ENSBTAT00000029274:34
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.290 A=NA C2=0.020
Domain overlap (PFAM):
C1:
PF0068312=TB=PD(11.6=4.0)
A:
NA
C2:
PF0000822=EGF=WD(100=60.8),PF0764510=EGF_CA=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCTACAACTACCTGGGCCCC
R:
GAAGCAGTCACAGGTGTAGCC
Band lengths:
342-1601
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development