BtaINT0129777 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009226 | SCUBE3
Description
signal peptide, CUB domain, EGF-like 3 [Source:HGNC Symbol;Acc:HGNC:13655]
Coordinates
chr23:9147469-9148693:+
Coord C1 exon
chr23:9147469-9147591
Coord A exon
chr23:9147592-9148567
Coord C2 exon
chr23:9148568-9148693
Length
976 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
CCTCAACTATTTGCCCACAGATG
3' ss Score
9.23
Exon sequences
Seq C1 exon
ATGTGGACGAGTGTGTGGAAGGGACCGACAACTGCCACATCGACGCCATCTGCCAGAACACCCCACGGTCGTACAAGTGCATCTGCAAGTCTGGCTACACGGGGGACGGTAAACACTGCAAAG
Seq A exon
GTGAGGCTGGGAGGGCACCTGGAGAAGGGAGAGCTGCCAGAGGGGGAGACCGTGCCCCCGCTCTCAGCTGGCCATGCTGTGCAAGAAGCCCTGCACTCCCTGCTGGCGTGGGACGGGGCTAGAGGAAAGCAGCTCCTTCCCAGAGAGGGTATCGTTTTCTAATTTGCACAAAGACACCATATATACATGCTCAGGCCCGGGTGGGAACAGTTCACAGCCATACAACCTGACTGGGTGAGGGGATCAGGATCACGGGACTAAGGCCTCAGGTTCCCTGCTATTGGAACTTCTGTCTTTAGACCCTTACACCATGCCCAAAAAGAATGAGAACAGACAATTTACCCTAGGGCAAATTCATACTATAAACAAACACATCTCCTCATAATTAAAGCAATGCAAATTAAAGCAGTCTTGAGATGTTATTTTAAATTTATGACCTTCTGTGTTGGTTAAGACTTCAATAGACAAGGTATACTCATTAATTCCCGGTGACATTATAAATTGAAAAGTGATTTTGTCATACCTAGAAGGAATCTTGAAGTCATTTATACCCTCCAACTCAGGAATTTCACATTTAGGAACTTATTTAAAGGAAATTCAAAGAAACAATATATGAGAGAAGATGTTTTTGATGCATTATGAGAGAAAAATAAATGGAAGGAATCTAACAATAGAAAAAAGGGATTAATAAATTATGATGTAGCAACATAATGGAATATTTTGCAACCATGTACAGTGATAATTGGAAAGATCTGATGAAGTATAAAAATGTTTATGACTGAAGTTTAGATGAAAATAGCTAAATGCAAAATGGTTTGTAGGCAATGAGAGTAACTATGGAAACAGAAATACACACAAGCACACACACATACACAGAGGTTTTGTATTTTTTAAAAAACCACCATAAAGCTGAGCCCAGGGATGGACGGTCAGGGGGATGCAGGTGGGTCCAGCTGCCTCAACTATTTGCCCACAG
Seq C2 exon
ATGTGGATGAGTGCGAACGGGAGGATAATGCAGGTTGTGTGCACGACTGTGTCAACATCCCTGGCAATTACCGATGCACCTGCTATGATGGATTCCACCTGGCACATGATGGACACAACTGTCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009226:ENSBTAT00000012158:2
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:
PF129472=EGF_3=WD(100=85.7)
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=86.0)
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:
ATGTGGACGAGTGTGTGGAAG
R:
GACAGTTGTGTCCATCATGTGC
Band lengths:
246-1222
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]