BtaINT0129746 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020573 | SCUBE2
Description
signal peptide, CUB domain, EGF-like 2 [Source:HGNC Symbol;Acc:HGNC:30425]
Coordinates
chr15:44123526-44125246:+
Coord C1 exon
chr15:44123526-44123642
Coord A exon
chr15:44123643-44125123
Coord C2 exon
chr15:44125124-44125246
Length
1481 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
GAGAGTGTTTTACTTCCCAGACA
3' ss Score
4.81
Exon sequences
Seq C1 exon
ATGTGGATGAATGCTCTCTGGATAGGACCTGTGACCACAGCTGCATCAACCACCCGGGCACCTTCACATGTGCTTGCAGCGAAGGGTACACCCTCTATGGCTTTACCCACTGCGGAG
Seq A exon
GTGAGCAGAGTCCCTCTAGAGTCACATGAGGCTGGGCCTTACTCCTAAGGTTTCCTGAGATCAGGGCCAATTTTTCTACCTTGGGAGCTGGACTGGACATACCCGTCACTTAACAGTAGTAGGGAGTCCCTCAGTTCAAGGGAAGCATCTGCTATGGGAAATCTTCTCACATTGATCCCTTTAATTCATCAAGTGTGAGATGGAGCAGAGAAAAGAGCTGAGTTCTTTCAGTGGTGAATGCTTTATGGACTTTATTGATGCTGTTGTACTCAGAGAATGGAGGGTCTCTCAAGAGCTGATGCACTGTCTGCTGGAACTTCCCAACAGATAGTAAAGTCACAGTCCTCAGAGAGGCTTGGCGGTGCACCAGCTGATCCCACAGTCTTACTGTGCATAGGGGCTGGCTGTGGGGCTTGGTTCGAGCTCTTTGAGCTGGTCTTCATGCAGGCCTCTCATCTGGAAGTGGGACCATGGACCCTATCTCTCTGCTCTGAGCCCTTGAAGCAACATCTTCTGATGTCTCATGATCTTACGGCCAAGTCGACTATAGCCCAAGTCAGACTTGGTGTCACTCTGCGCCCTCTAATCATCAGATGCATTTAGCAATCTTTGAGAATGCAGATTCTGATTCTGATTCTAAATGGCTAGACTTCCAAGGTGATTTTGGAGATTTGAGGATATGGGAACCACTGATCTAAGTATTTCCTACCCGATCCTTGTGTCCTATGTCCTTAGGAAGAATGGATAGTAGTAATTTGTCATAAATAGTGTTGTTTCTCTTCCCCTTTTCAAAACATACCCGTCATGGCTGAAGACATACTCTCCAGTCCATCAAGAAAGTTCAAGGAAATGTTTCCTGAATATGAATATGTATCTGCGTTTTAGTTGGAGTCACCTTCCAACTTGGACTCAGTCTCAGGTTGATAGGGATTAGTGCACATCATTTTTCTTTTTTAATGCCAAAATTTTGACAGCATAACTGCTTTATTTTTAAAAATTTAATTATTATTTATTTAGCTGCATTAGGTCTTCATTGTAGCACACAGACTCTCTAGTTGTGGCACATGGGCATTTTTTTTTATCTATACCCTAACTTTATAAACTATCAAGTGGAGAATCCTCATTCTCTCTATCTCCCTCGGGATGTAACTCAGGAAGACAGTGGAGTTTTAACTTAGGGGCCTGTGCTGTGGCTGAGTTGGACCCTGAGAGTAGAGTGTGACCCTTTCTCAGTGTGCTCGTTGGGGCAACTGTTTGGTCAAGAATGGAACTTGAGATCATCCTGGTGAGGTTCCTGCCAGGAAGTCCACTGAATGGGGAGGGGGTCAGCTGGTGCCAGGTGCACGTTCTGAAGGCAATCAGCACGTTCCCTTAGTGAGTTCCAGTCACGTGACTCCCCTCCTGCTTCTTCCTTGATGGAGGGATACTGTCAGCCGGGTCATTGACAGACGGCTGTGACAGGAGAGTGTTTTACTTCCCAG
Seq C2 exon
ACACCAACGAGTGCAGCGTCAACAACGGAGGCTGTCAGCAGGTCTGTGTGAACACTGTGGGCAGCTACGAATGCCACTGCCACTCTGGGTACAAGCTCCACTGGAATAAAAAGGACTGTGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020573:ENSBTAT00000027416:10
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:
PF0764510=EGF_CA=WD(100=95.0)
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=85.7)
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:
TGTGGATGAATGCTCTCTGGA
R:
CACACAGTCCTTTTTATTCCAGTGG
Band lengths:
238-1719
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development