BtaINT0087911 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006747 | LTBP3
Description
latent transforming growth factor beta binding protein 3 [Source:HGNC Symbol;Acc:HGNC:6716]
Coordinates
chr29:44392055-44394094:-
Coord C1 exon
chr29:44394005-44394094
Coord A exon
chr29:44392181-44394004
Coord C2 exon
chr29:44392055-44392180
Length
1824 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
CCCCCGGGCGCCCCCCGCAGAGA
3' ss Score
8.6
Exon sequences
Seq C1 exon
AGCTGATCTCCTGGCCCCCGCCGCCCCAGTTCCTGCCCGACTTGCCCCCGTCCCGCAGTGCGGTGGAAATCGCCCCTACTCAAGTCACAG
Seq A exon
GTAAGACCCGCCCACCTAGGTCACGACCCAGGTAAGCCACGCCTCCAACTTAGAGTTTCTCCTCCCTCACCCCTTCCAATCCTTCCGGAGGGCTGACACCCTCAAGGGCTTACTGTATGCCAGACCCTGGGCTGGGGGCTGGGGAAGCCTCGGCGTGCAACACTCTGAGACGCCACTCTGCCCTCAGCTGATCCGGGTGGTGTGATGGTCAGGCCAGTCTGAAGGCATTCACAGTCAATGAATATTTATGGAGCACCTACTATGCACAGGCACTGTTTAGGTGCTGGGGACACAGTAATAAACAAAACAGACAAAAATTCCCTGTCCTTGTGGAATAGACAGACAGCAAACAGATCAATGAGTCCAAATCTAGTGTGTCTCATAAGGGCTGTGCAAAAGTAAATCAGAGAAGAAGGAAGGAAGTCTGGGTGTTGTGATCATATGTAGAATGGCGATGAGAGAAGCCTTTCTGAACAGAGCTTTTAAGAGTGTTAGAAATTAACGACAAAATGTGGGAAAGAAATGGGCTAGCAGGTTGGGGAAAAGGACATTCCAGTTTGGGCAGAAGTTTGGGCAAAGGCATGGAAACATGAAACCCTGGTTTCATGGAGAAGAGAGAAACCACACATAGATCAGTGTTTCTGAACTAGGAGAGGGCCAGCTCAGGGAGCTTTAAGAGGCTTGGATTTGATCCCAAAGGCTGTGGGAAGTGTCTGCATGGTTTGGGGCATCATAATAATTGCTAGCTATGGCTGAACAGTTGCCCTGGGCCAGGCACTGACTGGAGAGTTTTACATACTAAATACCATTTAACTTTCTTGACCTCTGTGAAGTGGGCACGGCTAGCCTCATTTTCCAGATGAGAAAACTGAGGCTAAGAGAGGTTCAGTAGCTGATCCCAGGTCACACAGTTGAGCCGGATTCAAGCCCATGTCTGGTTGGACTCCAGCCACAAGGAAGCCACCAACCCAATTGAAAACTGGAGGCTAGATGAGCTCCTAGTGGAAGATGGCTGCCCAGGAAATCTGCACAGGCTGGGATAACCCAGTGACAGCCTGGGGGCTGTGGGAATGTGGAGAAAGAGGCACTTGGGGACACTTATCAGAGGATGGGGTGTTAAGGAGACTAGGGAGAGTCACTCTAAGCAGAGAGAACAGCCTGCAAGAGCCCACTGGCCAGGTGTGTTTGGGAGGGAGTGGAGTTCAGCCGCCAGGGCTTCCTGGGGCTTCCTAGGGCAGGGTTCAGGGGAGGGGCCACAAGGAGGAAGAGGTGGGAGGCAGGGAGTACTGTGAATACTAGGAAAGAAGGTAAGGAGGCTTCCTGAGTCTGATCACCTGTTCCAGCCAGGGTTCCCAGGAAACTAGCTCCTGCCTGCCTTGAGAGGGGGAGGAAAACTTCTGGAATTGGGGGGAGGTGGGCAGGTCTCTAAGGCAAGGGGTGTTGGTTCACTTGTCTGGAGGATATTGGTGTGATTGAGGCGACAGAGTTTGAGGTGTTGAGGTGACTGGAGTCAGAGTATAGTAAGTGGAGACAGAAGTATCAAGGGTCCTGAACTTGAGGAGGTGGGGATGCCAGGGACCTGGGATCATGGTTTGGGGCTACTTGGGGTTGTGATTTTGCGGTTATCTGTGATGGAGGTGTAGGGAATCCTAGGATGGGGGGCATGGCTGTATGGAGATCTGAACTCATAGTGCGACCAGGCTCAGTTATCGGCGTCGAGAGTGATGGGGTGTCCAGTTCTTCCCTGGGAATGTGGCAGAAAGTGACTGCTCCCTGCCTGCCCCCTCTGACCTGCCGCCCTTTTCCCCCGGGCGCCCCCCGCAG
Seq C2 exon
AGACGGACGAGTGCCGACTGAACCAGAACATCTGTGGCCACGGAGAGTGCGTCCCGGGACCCTCGGACTATTCCTGCCATTGCAATCCCGGCTACCGGTCGCATCCGCAGCACCGCTATTGCGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006747:ENSBTAT00000008880:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.968 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=86.0),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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTGATCTCCTGGCCCC
R:
CAATAGCGGTGCTGCGGATG
Band lengths:
211-2035
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]