BtaINT0129785 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009226 | SCUBE3
Description
signal peptide, CUB domain, EGF-like 3 [Source:HGNC Symbol;Acc:HGNC:13655]
Coordinates
chr23:9158152-9158865:+
Coord C1 exon
chr23:9158152-9158274
Coord A exon
chr23:9158275-9158748
Coord C2 exon
chr23:9158749-9158865
Length
474 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
TTGAAACCTTGCTCTTCCAGATA
3' ss Score
9.39
Exon sequences
Seq C1 exon
ACATAGATGAGTGCCGCTTGAACAACGGGGGCTGTGACCACATTTGCCGCAACACAGTGGGCAGCTTCGAATGCAGCTGCAAGAAGGGCTATAAGCTTCTCATCAACGAGAGGAACTGCCAGG
Seq A exon
GTGAGCAGACCTGGGCCAAGGAGAGTTTCTAGAGTAGGAGAGCTTCAAAGAGGCCAGAGGGCCAGAGTCTGAGAGGGGAGACTCCACAGGCAGTGTCATGCTGTGACCTAGCAAACATGCTCCTTCCTCTTGGCAAACCAGCCCTTCTGGGGCACATGGCTCAACAAGGAGGGAGAGTGGATTTCACCCCAGTTCACATCCTTGGCAGGATCCGACCAGCCTAACCACACATGGTGGCCCTAATCCACAGGCACAGATCTCAAAGTTCCTGACTTCAAAGGCTCCAAATGGAGGGGCCTAGGGGAGTGGGTAGGCATTGCTGAGTCACTGATCTTAGGGCTGGGCCAGAGGTAGGAACTCTTCAGTTTGAGGAACAGAGCCAAGGCCCCTCCCTGGGGCCCTTCACCTGAGTAGGAATCACAGGGTCAAGTGGCCCCAAGACAGATGCAGTGGCTTGAAACCTTGCTCTTCCAG
Seq C2 exon
ATATAGATGAGTGTTCCTTTGATCGGACCTGTGACCACATCTGTGTGAACACGCCAGGGAGCTTCCAGTGCCTCTGCCGTCATGGCTACCTCCTGTATGGCGTCACCCACTGTGGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009226:ENSBTAT00000012158:8
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:
PF146701=FXa_inhibition=WD(100=85.7),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=95.0),PF0764510=EGF_CA=PU(0.1=0.0)
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:
AGATGAGTGCCGCTTGAACAA
R:
CAGTGGGTGACGCCATACAG
Band lengths:
231-705
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]