BtaINT0029702 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012485 | C9orf114
Description
chromosome 9 open reading frame 114 [Source:HGNC Symbol;Acc:HGNC:26933]
Coordinates
chr11:99318415-99319620:-
Coord C1 exon
chr11:99319470-99319620
Coord A exon
chr11:99318484-99319469
Coord C2 exon
chr11:99318415-99318483
Length
986 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TTGCTCTGCTTGTCTTCCAGGAG
3' ss Score
10.76
Exon sequences
Seq C1 exon
CAGGCACGCTCTCGTGGTGTTTGGGGGCCTCCAGGGGCTGGAAGCTGGAGTGGATGCCGACCCCAACCTGGAGGTGGCTGAGCCCAGCGTTCTCTTCGACCTGTACGTCAACACCTGCCCCAACCAGGGCAGCCGCACCATCCGCACAGAG
Seq A exon
GTGAGCCACCCACCTCCCTGACCTCCCGGCCCTGCCTCTTCACCACCAGCAGGGCCCAGAGCCCCTCCCTCTGGCCAAGGGGGTTGCAGCTCTCTCCCTGTCCCTCATCCCGTCCGGGGCTGCCCTGAGCCAGCCTTCTGGGGCAGTCCCCTCACCCCCTCAGCCTCTCCCTACAGCAGAACTACAGCAGGGATGAGCTAAGAGTGAGCTGGAAGCCAGGAATGCTGGTTTTGGTGCCCGTCCAGCTGCTCCCAGGCTGGCTGACCCAGGACACCCACCACCCCTGCTCTGGGCCTGTTTCCTTAGCTGTATGCTCCGTGTCCCACTCCCTGCGTCTGACCGTGGTGGGCAAGGCAGCCCTCCTCGCCGGCACCTGTCTCCAGGGGGACAGGATGCAACCTTCTCTCAGAGCCTTCCACCTGGGCAGCATGGAACGCTGTGCCTGTAGGCACCTGCTGGGGTGCCTACAGTGGTGACCAAACACGTGGACAGCCTCAGTCTCCCTGACCCCAGGAGCCCGGCCAGGGCCGGGTACTGTGCACTTCCAGTCTCAGGCAGGAACCCTTGCTCCCACACTTCCGAGGGCCCTCCTGCCCATCACCTCCCCCTCCCCGGCTGACCCTGGGAGGTGGGTATTATGATCAGCCCCATTTTATAGACGAGGAGACTGAGGAGCAGAGAGGTGAGGCCCTTTCCTGGCAGGGCCTGCAGGTGGCCAGTGACAGTAGGCGAAGCTGAACCTGTCTCCCCCCTCCCCACCCGCCTGCCCTGGACCCTGCTGATGGCAGCATACCCCATGGGCCGGGGTCCTGGGCGGTACCTCCCCACCCTCCTGCACCGGACCCTGCTGATGGCAGCATACCCCATGGGCCAGGGTCCTGGGGAGTGCCTCCCCACACCCGCCAGACCCTGCTGATGGCAGCATATGCCAAGGGCCGGGGTGCTGGGCGATGGGGCCACAGCCTGTTGCTCTGCTTGTCTTCCAG
Seq C2 exon
GAGGCCATCCTCATTTCCCTGGCTGCCCTGCAGCCTGGCCTTACCCAGGCAGGTGCCCGGCCCAGCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012485:ENSBTAT00000016565:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.227
Domain overlap (PFAM):
C1:
PF0259812=Methyltrn_RNA_3=FE(17.1=100)
A:
NA
C2:
PF0259812=Methyltrn_RNA_3=PD(3.4=43.5)
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:
GCTCTCGTGGTGTTTGGGG
R:
CCTGGGTAAGGCCAGGCT
Band lengths:
193-1179
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development