BtaINT0021836 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001473 | ARVCF
Description
Bos taurus armadillo repeat gene deleted in velocardiofacial syndrome (ARVCF), mRNA. [Source:RefSeq mRNA;Acc:NM_001105380]
Coordinates
chr17:74931633-74932172:-
Coord C1 exon
chr17:74931974-74932172
Coord A exon
chr17:74931745-74931973
Coord C2 exon
chr17:74931633-74931744
Length
229 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
TGATCCCGCCTGGGCCGCAGCCA
3' ss Score
3.67
Exon sequences
Seq C1 exon
GGAGCTACGCCATGGCCGAGCTTGTGAGAAACGTGCGCAGCGCGCAGGCGCCCGCCCGGCCCGGTGTCCGCCTGGAGGAGGACACAGTGGTGGCCGTGCTCAACACGATCCACGAGATCGTGTCCGACAGTCTGGACAACGCGCGCTCGCTGCTGCAAGCTCGCGGCGTGCCCGCGCTGGTGGCACTGGGCGCCTCCAG
Seq A exon
GTGGGTGCAGGCGTGGCCGCGGGAGGGGCGGGGCAGGGCCTGTTGGGGCGGGGCCTAGGTGGGTGGAGCGGGAGGGGGCCCCGGGTGGGTGGGCGGGGCCTGTGCGTGGGCGGAGTGGGGGGGGCGCCCCAGGTGGGTGGGCGGGGCCTGTGGGGGCGGAGTAGGAGGGGCCAGGTGAGTGGGCGGGGCGGGGCGGTCCAGGCAGAAGCTGATCCCGCCTGGGCCGCAG
Seq C2 exon
CCAATCGGTGCGCGAGGCGAAGGCCGCGTCGCACGTGCTGCAGACCGTGTGGAGCTACAAGGAGCTGCGCAGCGCCCTCCAGAAGGACGGCTGGAGCAAGGCGCGCTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001473:ENSBTAT00000001929:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.030 A=NA C2=0.105
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTACGCCATGGCCGAGCTT
R:
CTTGCTCCAGCCGTCCTTCT
Band lengths:
295-524
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development