BtaINT0129780 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009226 | SCUBE3
Description
signal peptide, CUB domain, EGF-like 3 [Source:HGNC Symbol;Acc:HGNC:13655]
Coordinates
chr23:9148568-9150442:+
Coord C1 exon
chr23:9148568-9148693
Coord A exon
chr23:9148694-9150307
Coord C2 exon
chr23:9150308-9150442
Length
1614 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
CACCCGCCTGTCCTGCGCAGATG
3' ss Score
9.68
Exon sequences
Seq C1 exon
ATGTGGATGAGTGCGAACGGGAGGATAATGCAGGTTGTGTGCACGACTGTGTCAACATCCCTGGCAATTACCGATGCACCTGCTATGATGGATTCCACCTGGCACATGATGGACACAACTGTCTGG
Seq A exon
GTGAGCGAGGGGTGAAGGTATGGGGGCAGGGGATGTCTTGTGGAGAAGGAGATGTTTTCAGCATTTCCCATTCTCAGGCACGGAGAGGAAAAGTAAACAAAAAGCTGCATTCCCACAAAACAGAAAACAAGGTCAGCCTCCCCTTTGAGACAAGATGCTGAGGATGAAAAAATCCTTCTGAATGAAAAACATTAAAGAGATGCTGCTAGAAAGTGTTCTCAGGGGAAGGGCCAGCAGATGACAATAGTGGCTGAGTCACAGCAGGTGGAGCATGGTGGGAAGGTGGTTTGGCTCCAAGCAGATCCTGGCTCTGCTGCTTACTGGCTGTGCAGACTTGGGCAACAGGGAAGGTAATAACCACCCAAAGGGCTGCAGTGTGATGACACAATGTGCGTAAAGAGCCCTGTACCATCCTTAGGACATTGGGAAGTGCTCAGAAAACAGGAGGAATGTCATCCATGATGATGCTTCCCTACCTTAGGGTTAGGGTTCCGAGTCTTATTAGCCTTTAGCTTTTAGGGGAACCCTGTATAAGTCATCCATCCCCTGGGCCTCAGTTTCTCCACCACAAATTGTAGGAAAGAACTTGGCTAGAGTCACAAAATGACCAGGTTGGACTAGAAGGGAGCAAACAGAAGGATGGAATGTAGGACAGGGTAAGAGTAGGAGGACAGGGATAGGGAGAAGTCAGGGGCATAGGAGATGGGACGGGAACAAGGCAAAACCGAGGACACCTCCCTGGCTTTTCCTCCAGGTGCACTCCTCAGCCAGGAGCCTGCTAGGCCTGGGCCCCTCTGCCCTTGGCCAAAGAGTGAAGGACGGGGTCTCAGGGCTCAGCAGAGAGGAGGGGAAGAGAAGGCCCTAAGGAGTCGGATGCCTTTGGAGCTAGAATGGCCCATTTGGGTCCCTCTCCGATGCCTCCTGCACCAAGGAAAACAGAGAAGGACTGTGAACTTGGGAGGGTAGTAAGGCGCATGAGATGGAGTCAGGGCACTGAAGTGGGAGCCCCGGGATGAGCCTGGGGATGGTGATTTGGGGTTGGTAATTAGGGTGTGGCCTGGCAGCTCTTTCCCCATCCCTCTCCGCCAAGCTACCAGACTTTGTTTTGTTAAACCAAAATAGGAGAAAGGCTAGGGAATGTGGCAGCAAGCCCAGGCATGGGAGAAGGGGAGGAAGGACAGGGCCATGGTCCCTCCACAGAAATGGCCCCTGCCCCACAGTGAGTTGAAGCTCACTACCTTTCCCCACCCGCCCCCTCCAACCTCAGCACCATTGCCAGAGCTCTCCCCGCACACAGAGCCCTGAGTCCCTGGCTGCTCGTCACAACCGCTGCTCACAGGTCTTGCCCCTGACCAACCTCCATCCTTGTCTTCATCTCTGCTCCTCTCGCTCTGCCTCCTTTCCTGATCTCCTCTGCCTTCAGACCCAGTTTCAACAGGTGAGGGAAAGAGAGGCACGTCTTCCCCTGAGTGAGCCATTCTCGCATGTCCCCTCCTCACTTGCCGCCCCCTGAGGGTGGCAGTGGGATGTGAGAACCGCCTGGCTTCCAGCTGGGTGCTGGGTTTCATGGAAGGCCTGGCTGCGCCCGCCTCACCACCCGCCTGTCCTGCGCAG
Seq C2 exon
ATGTGGACGAGTGTGCCGAGGGCAACGGCGGCTGTCAGCAAAGCTGTGTCAACATGATGGGCAGCTACGAGTGCCACTGCCGGGAGGGCTTCTTCCTCAGCGACAACCAGCACACCTGCATCCAGCGGCCGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009226:ENSBTAT00000012158:3
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=86.0)
A:
NA
C2:
PF126622=cEGF=PD(12.5=6.5),PF146701=FXa_inhibition=WD(100=78.3)
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:
ATGTGGATGAGTGCGAACGG
R:
CCGCTGGATGCAGGTGTG
Band lengths:
254-1868
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]