BtaINT0129778 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009226 | SCUBE3
Description
signal peptide, CUB domain, EGF-like 3 [Source:HGNC Symbol;Acc:HGNC:13655]
Coordinates
chr23:9164049-9164396:+
Coord C1 exon
chr23:9164049-9164201
Coord A exon
chr23:9164202-9164316
Coord C2 exon
chr23:9164317-9164396
Length
115 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGC
5' ss Score
8.27
3' ss Seq
CCCCTTCATGGACTTTGCAGAGG
3' ss Score
6.42
Exon sequences
Seq C1 exon
CCTCCCCATCCTCCATTACCACCTATGAGACCTGCCAGACCTACGAGCGCCCCATCGCCTTCACAGCCCGCTCCAGGAAGCTCTGGATCAACTTCAAGACAAGTGAAGCCAACAGTGCCCGTGGCTTCCAGATCCCCTATGTTACCTACGATG
Seq A exon
GTGAGCAAAGGCAGGAAGAGCCAGGGAGGTGGGTGAGGAAGGGGAGGTTCCGGAATCTCAAAGGGAGGAGCAAGAGTTCTCACGCATGGGCTCCTCCCCTTCATGGACTTTGCAG
Seq C2 exon
AGGACTACGAGCAGCTGGTAGAAGACATTGTTCGAGATGGCCGGCTCTATGCATCTGAAAACCACCAGGAAATTTTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009226:ENSBTAT00000012158:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043115=CUB=PD(41.8=88.5)
A:
NA
C2:
NO
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:
CCTCCCCATCCTCCATTACCA
R:
ATTTCCTGGTGGTTTTCAGATGCA
Band lengths:
226-341
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]