BtaINT0029719 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012735 | C9orf117
Description
chromosome 9 open reading frame 117 [Source:HGNC Symbol;Acc:HGNC:27843]
Coordinates
chr11:98405929-98406448:+
Coord C1 exon
chr11:98405929-98406095
Coord A exon
chr11:98406096-98406261
Coord C2 exon
chr11:98406262-98406448
Length
166 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGT
5' ss Score
7.93
3' ss Seq
CAGTCCCCTCCCCACAGCCAGGG
3' ss Score
-13.84
Exon sequences
Seq C1 exon
ATGCAGCCTAACAAGGAGGACGGTGACTTCGACGTCATGTTCCAGCTGCAGCGCAAGGAGATGCTGCAGCAGTTGCTGCTCATGCTCGGCTCGGCCGTGGTCTCGAGCCCCCAGATGGCTGAGGCCCTGCATCGGGAGAGCCAGCCCTGTGGCCTGCCCAGGGAGGG
Seq A exon
GTGAGTGCATGACCCCGCATGACCCCGCGTGACCCCTATGGGACACGTCCAAAGGCTGTCCTCGGCTGAGCCGGGGCCGGAAGCCTGGCTCCCCGGAGCTGCTCTGAATCTCGGCTTCCTCGTCTAAGATGTGGAGGGGATGACACCAGTCCCCTCCCCACAGCCA
Seq C2 exon
GGGCAGCAGCACCCGGCTGCTCAGGACGGGGTCTCTGCTGCAGCAGCTGTCCGGCATCATACCCTACCGGCCTGGGGACCTGGGTCTGGTACCTCGACGGATCCACATCCCACCCAACCCTGAGGACCTCAGGCTGCTCTCACATACCACCCGCATGGGCAACTTACAGACGTACAGCAGCCCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012735:ENSBTAT00000016929:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.446 A=NA C2=0.540
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
ACTTCGACGTCATGTTCCAGC
R:
GGATGTGGATCCGTCGAGGTA
Band lengths:
252-418
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development