BtaINT0029753 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019513 | C9orf50
Description
chromosome 9 open reading frame 50 [Source:HGNC Symbol;Acc:HGNC:23677]
Coordinates
chr11:100031342-100031781:-
Coord C1 exon
chr11:100031616-100031781
Coord A exon
chr11:100031463-100031615
Coord C2 exon
chr11:100031342-100031462
Length
153 bp
Sequences
Splice sites
5' ss Seq
CCTGTGAGG
5' ss Score
3.69
3' ss Seq
TGGGCGCCTGTCCCCCTCAGGTC
3' ss Score
9.15
Exon sequences
Seq C1 exon
CCCGGCAGGGCATCTTCGAGAACAGGACAGCCAAGCCCCGGTCAACAGCATCGGATCGGGTGTTCGGGAGTGTCGGGAGATGGCTGGAGAGCTTGCCCAAAGCCTTGTACCCGAGGGCCAAGGAGGAGACCGCGGCCAGCCCCTTCAGCTGGGACTTCCCTGGCCT
Seq A exon
GTGAGGCTTTGTGGAAGGGGGCGGGATTCACGCGCCTCCTCCCCCTGTAAACCACCCTGTCCAGCGGTGGTCTGGGCCCTGGAGGGTCCTGCCAGCCATGCATGGACCTGGGACTCGGGGTCCACGCAGCTCATGGGCGCCTGTCCCCCTCAG
Seq C2 exon
GTCCACCCTGGAGCCGAATGGCCACCTCCCTGAGGACACTTCCATGAGCAGCAGCCTGCCCTTCATCCCCAGGGCCACCGCCCAGAGGCAGCGGGGGGACCTCAAAGCCCTCCTGGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019513:ENSBTAT00000025995:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.113 A=NA C2=0.438
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCAACAGCATCGGATCGGG
R:
CTCCAGGAGGGCTTTGAGGTC
Band lengths:
244-397
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development