BtaINT0087902 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021957 | LTBP2
Description
latent transforming growth factor beta binding protein 2 [Source:HGNC Symbol;Acc:HGNC:6715]
Coordinates
chr10:86186700-86188215:-
Coord C1 exon
chr10:86188066-86188215
Coord A exon
chr10:86187621-86188065
Coord C2 exon
chr10:86186700-86187620
Length
445 bp
Sequences
Splice sites
5' ss Seq
TGGGTAGGT
5' ss Score
6.86
3' ss Seq
CCTCCCTCTCCTCCTCTTAGATG
3' ss Score
11
Exon sequences
Seq C1 exon
AGCACCAGGCTGGCTTCGAAGGGCTCCAGGCAGAGGAGTGCGGCATCCTGAATGGCTGTGAGAATGGCCGCTGCGTGCGCGTGCGCGAGGGCTACACCTGTGACTGCTTCGAGGGCTTCCAGCTGGACACAGCCCACATGGCCTGTGTGG
Seq A exon
GTAGGTCTGGAATCAAGAGTGCTAATGCCCGGGGGCAGGACGGCCCTGCTGGATCCATGTGGAATAGTCAGACTGGCCCACTGCTCACTTAGGGATGCCTGACTTGGCCTAAGTGGCAGACCCACTGCTGCCTGCTAGCGGCCCTGCTGGGCACCAAGCCAGGTGGTGAGAGCTCCAAAGGTCTACCACTGTGATTAGAAAGCCCTTTCCATGGAGGTTCCTAGATAGAAGAGAGGCAGGGGCGAGACAGCATGGTCACAGTATGGGTTCACGACCCCTGGCTTTGTGTCCGTGAGTTGCTTCCTTTCGGGCATCCTTTGGCTGCCACACGGACGATTCCGCTGTGGGGCAGTGCTCAGGGCTTACTGACCAGAGGGGCACCGGGGGCAGCAGGCCATAGGCACGTGGGCTCCCTACAGCTCTCTCCTCCCTCTCCTCCTCTTAG
Seq C2 exon
ATGTGAATGAGTGTGATGACCTGAATGGGCCTGCTGCGCTCTGTGTCCATGGTCACTGCGAGAACACGGAGGGCTCCTACCGCTGCCACTGCCTCCCGGGTTATGTGGCTGAGGCAGGCCCCCCACACTGCACTGCTAAGGAGTAGCAGAGACGGGTCGAGTGTGGGCAGTTACCTGGAAATGGGCCCTGGCCACAGGCGGGGCCTTGAGGAAGCTTTCCTAGCTGGGGAGATGCCATGAAGACACCGGCCGGAGGCCCTGCGGCCCAGCTCCCAGCCAGCCTCGCCTGCTTTTCATCTCCCCCAGCTTCGGCTCTTGCTATGTGAGCATCTGTCACGGCCTCCACACCACCATGCCCTTGCTTGGCTCAAACACCACCAAGTGCTTTAATGCTTCAACCACTGGCCACGAGGCCCAGTCTGCCATCTGTCCGGGCCTTGCCATGGGATGCTGATCAAAGGACGGCCCTCAACCAGCCCCTCAAGCTGTGCAAACTTGCAAGGTCCTTCGGCCTCACGCTGTACATACCCCTTCTCTAGACATGACCCACGTATCATCCTGATGCTTCTACACCTGGATCGGAGGCCACACCTGCCCTGGAATGGCCCTTCAGAATCTATCAAGTGAAAAAGGATGGGGCGGGGCGTGGGAGAGGAGTTTGGGGAGTGATTGTCACCACTCAGCCAGTCTGAGTGGCTGAGGGCCAGATTTAGCCACGTCTCCACCCTGTTGCCAGTTTTGTGGCCCTGGAGAGGGGCAGAAGATGCCCTCATCTCGGAGAAGCAAGACTGATACTAGCTTGCTAGTAAGAGACGCATATGAAGGGGAGCAAGGAGCCTGAGAGAGCAGCAACAGGACAATATTTAAAAAAAAAACAAAACGGGGAGTTGATGAGAAAGGGGGCACCACGGCTTTATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021957:ENSBTAT00000029274:35
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=WD(100=60.8),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=89.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAATGGCTGTGAGAATGGCC
R:
TTCATGGCATCTCCCCAGCTA
Band lengths:
343-788
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development