BtaINT0029710 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012485 | C9orf114
Description
chromosome 9 open reading frame 114 [Source:HGNC Symbol;Acc:HGNC:26933]
Coordinates
chr11:99319764-99320436:-
Coord C1 exon
chr11:99320338-99320436
Coord A exon
chr11:99319867-99320337
Coord C2 exon
chr11:99319764-99319866
Length
471 bp
Sequences
Splice sites
5' ss Seq
TCAGTAAGC
5' ss Score
5.59
3' ss Seq
TGAGCTGGCCTCCCCGGCAGGTG
3' ss Score
8.32
Exon sequences
Seq C1 exon
AAAGTAAGACCTACCGGGGGAAGGTCGTGTCGTCGCAGGACCCTCGGACCAAAGCTGGTCTCTACTGGGGCTACACAGTCCGCCTGGCCTCTTGCCTCA
Seq A exon
GTAAGCACAGAGCCTCCTCCTATGAACATCTGTCTTCTCTCTGTCTGGGGGACCTCAGAGAGCCCTGCTTGACCCAGAAGTCAGACTGGGATACTAATCCTGCTAACATGCTGTGTGTCCTTGGGCAAGTGCCTTTGCCTCTCTGGGCCTCGAGTGCACTGCCTGGGATGCTTTTAAGGACTCCTGAGGCAAAGCATCTTTAATGATGTCTGCCGTGGGGCTGGGAATGGGGGCAAAAGGGCCAGAGGAGTCAAAGGTATGCCATTTATTTTTGGAGTTCCTTCCTCCCCAGCCTCTGCTGTTCTCCAAGCTAGCTCAGGCACAGTCTCTGCCCGCTCCATCCCTGACTTTCCAGCAGGAATGCAGGCTGTGGCTCCCTGGTTGCCACCACCACCCCCCCACACACACACGCACCCAAGTGACAGTGGCTTGGGGGGAACAGGGTCCCCAGTGAGCTGGCCTCCCCGGCAG
Seq C2 exon
GTGCTGTGTTTGCTGAGGCCCCCTTCCAGGACGGCTATGATCTGACCATCGGGACATCAGAGCGAGGCTCAGATGTGGCCTCTGCCCAGCTTCCCAACTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012485:ENSBTAT00000016565:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.265 A=NA C2=0.086
Domain overlap (PFAM):
C1:
PF0259812=Methyltrn_RNA_3=FE(11.3=100)
A:
NA
C2:
PF0259812=Methyltrn_RNA_3=FE(11.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTAAGACCTACCGGGGGAAGG
R:
CTGAAGTTGGGAAGCTGGGC
Band lengths:
199-670
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development