BtaINT0129786 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009226 | SCUBE3
Description
signal peptide, CUB domain, EGF-like 3 [Source:HGNC Symbol;Acc:HGNC:13655]
Coordinates
chr23:9158749-9159474:+
Coord C1 exon
chr23:9158749-9158865
Coord A exon
chr23:9158866-9159348
Coord C2 exon
chr23:9159349-9159474
Length
483 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGC
5' ss Score
7.79
3' ss Seq
CTCCCGCCTCCTTCCCCCAGATG
3' ss Score
12.49
Exon sequences
Seq C1 exon
ATATAGATGAGTGTTCCTTTGATCGGACCTGTGACCACATCTGTGTGAACACGCCAGGGAGCTTCCAGTGCCTCTGCCGTCATGGCTACCTCCTGTATGGCGTCACCCACTGTGGGG
Seq A exon
GTAAGCTGGCACCTTTGACCCTCAGCCCCTCACCTCCTCGCCTTTCAGCTGAACACACCCGAGGTGGCTTGCGTCTGTGGCGGTCCCCAGGTGCATGTGCCATGCCTACATCCATCATGAGGAAATGGGAGAAGTGAAGACAGTGGAGACACTGGGGTATCAGGGAACAGCATCCTGTTTCCAAAATTTCTATCTCCCATCCCCATCACTGTCCCTTGACTCCCATCCTCAGCCCCCAGATTACAACTCCTCTGCTAGGTAGGCATGGAAAGCTTTAAAAACTTTGTTAGCTTGGTCCCTTCTTAATCCTTCTTTGGACTGAGAACAGAGACCAGGGAAGAAGGTCTTAGGTTTGAACTCTTCTCAGACTGGGAATCATCTTAGGGTACCTGGAACTCTAACGAAAGGCCCCCCACTCACTGCCCACGTCCTGGCTCCTGCTCCCCCCATTGTTTGTCTGTGTCTCCCGCCTCCTTCCCCCAG
Seq C2 exon
ATGTGGATGAGTGCAGCATCAACCGGGGAGGCTGCCGCTTTGGCTGCGTCAACACTCCTGGCAGCTACCAGTGTACCTGCCCCGCAGGCCAGGGCCGGCTGCACTGGAACGGGAAAGACTGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009226:ENSBTAT00000012158:9
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),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=PU(80.8=97.7)
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:
AGATGAGTGTTCCTTTGATCGGAC
R:
CTGTGCAGTCTTTCCCGTTCC
Band lengths:
239-722
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]