BtaINT0029716 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012735 | C9orf117
Description
chromosome 9 open reading frame 117 [Source:HGNC Symbol;Acc:HGNC:27843]
Coordinates
chr11:98404470-98405227:+
Coord C1 exon
chr11:98404470-98404737
Coord A exon
chr11:98404738-98405096
Coord C2 exon
chr11:98405097-98405227
Length
359 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCAC
5' ss Score
4.22
3' ss Seq
GCCACCTGCCCACACTGCAGGTC
3' ss Score
6.01
Exon sequences
Seq C1 exon
ACTGAGAAAGGAGATCATCCAGCGTGTGAACATGGTGGCCACGGAGTTCCGCAAGGTGGCCACGAGCCAGATGTGGGACACAACCAAGCGGGCCATCACAGAGAACAACGCGGTGACCCTGCAGTTGGCCAAGATTACACGACAGGGCACGCAGCTGCTGGCGGAGAATGAGCAGCTCCGGGGCCACCAGGACGACCTGTGCAAACAGCTGGAGCTGCTGGAGAACTCCCAGAAGCTCATGGCCAGGAAAAGCCGGGGCCACCAGAAG
Seq A exon
GTGCACACTCCCGGCCCTCACCCCAGGGGGCTTGGCACGGAGAGCAGGAAGGAAACCCAGGGCCCTGTACTCGGGGCAAATACGGCCCCTGCAAGGGTGGACCTGGGGTCAGGGCATGGAGGAGGGCTCTGGCCCCCATCGCTGGTTTGTATTTGACTTGGAGCCCCCATCACTGGTTGAAGGGGAACCCAGCCCCGGGGCACCCACCCACACAGGTGACTTAACGGGTGCACAGCAGCCCTGAGGTAAGTCCAGTGGGTGCTGGGCTCCCAGGGCCCCGGCCAGCCTCTCTGGGGGACACGGGGCTGGCTGAGGGCCTGTGGCGAGGCCCAGAGCATGGCCACCTGCCCACACTGCAG
Seq C2 exon
GTCATCCTCATGCTGACGGAGAAGTGCCGCGAGCAGCAGCAGGGCATGGCTGAGGCCGAGCGGCTGCGCGTCCTGCTGGGCCAGCTGGAACAGGACCTCCTGAAGCAGCAGCAGGACAATCAGGCACTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012735:ENSBTAT00000016929:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.067 A=NA C2=0.136
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCATCCAGCGTGTGAACATGG
R:
AGGAGGTCCTGTTCCAGCTG
Band lengths:
355-714
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development