BtaINT0029706 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012485 | C9orf114
Description
chromosome 9 open reading frame 114 [Source:HGNC Symbol;Acc:HGNC:26933]
Coordinates
chr11:99322058-99322300:-
Coord C1 exon
chr11:99322211-99322300
Coord A exon
chr11:99322108-99322210
Coord C2 exon
chr11:99322058-99322107
Length
103 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGG
5' ss Score
5.42
3' ss Seq
AGCTCTGCGTTCTTTCCTAGGTA
3' ss Score
9.26
Exon sequences
Seq C1 exon
GACCGTGGAGGGGGAATTCAGGGGAGTTGGCAAGAAGGGGCAGGCGTGCGTGCAGCTGGCCCGGATACTGCAATACCTGGAATGTCCACA
Seq A exon
GTAAGGACACACCCCCCAGACCGGAGCGGAGGGGCGGTCACGGTGCAGGTTGCGCGGGACATGGCCTCCCTGGGAACTTCCTGAGCTCTGCGTTCTTTCCTAG
Seq C2 exon
GTACCTAAGAAAGGCCTTCTTCCCCAAGCATCAGGATCTGCAGTTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012485:ENSBTAT00000016565:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.097 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0259812=Methyltrn_RNA_3=FE(10.2=100)
A:
NA
C2:
PF0259812=Methyltrn_RNA_3=FE(5.8=100)
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:
GACCGTGGAGGGGGAATTCAG
R:
GCAAACTGCAGATCCTGATGC
Band lengths:
138-241
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development