BtaINT0129767 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009226 | SCUBE3
Description
signal peptide, CUB domain, EGF-like 3 [Source:HGNC Symbol;Acc:HGNC:13655]
Coordinates
chr23:9159349-9159875:+
Coord C1 exon
chr23:9159349-9159474
Coord A exon
chr23:9159475-9159758
Coord C2 exon
chr23:9159759-9159875
Length
284 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
GGCTTCTCTGCCCTTCCTAGAGC
3' ss Score
7.96
Exon sequences
Seq C1 exon
ATGTGGATGAGTGCAGCATCAACCGGGGAGGCTGCCGCTTTGGCTGCGTCAACACTCCTGGCAGCTACCAGTGTACCTGCCCCGCAGGCCAGGGCCGGCTGCACTGGAACGGGAAAGACTGCACAG
Seq A exon
GTGGGCGGCGCCCTCTGCTGGCGGAAGCTTGCACTGCAATTTCAGGGAAGGGGGTCGCTGGGGTCCTGGAAATCGTGGAGTTAGGGTATGAAGGATTAGGGGATAGAGAATGTAGCCGTTTGAGACATGGAGTTCCTGGTAAATAACTCCTTCGTCCATTTCCATGTACAACTGCAATTCTGCATGTAGCTCATTCTCTTCCTCCAATTACACACCTGACTGACAGGCTAGAGCGGGTAGGAGAGGAAGAGCCTCTCTTCCTCAGGCTTCTCTGCCCTTCCTAG
Seq C2 exon
AGCCAGTGAAGTGTCAGAGTAGTCCTGGTGCCTCAAAAGCCATGCTCAGCTGCAACCGGTCTGGGAAGAAGGACACCTGTGCCCTGACCTGCCCATCCCGGGCCCGGTTTTTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009226:ENSBTAT00000012158:10
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=PU(80.8=97.7)
A:
NA
C2:
PF0764510=EGF_CA=PD(17.3=22.5)
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:
TGGATGAGTGCAGCATCAACC
R:
GATGGGCAGGTCAGGGCA
Band lengths:
220-504
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]