BtaINT0021838 @ 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
chr17:74931133-74931538:-
Coord C1 exon
chr17:74931448-74931538
Coord A exon
chr17:74931187-74931447
Coord C2 exon
chr17:74931133-74931186
Length
261 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
CATACGCTCATGCCTTGCAGACG
3' ss Score
7.87
Exon sequences
Seq C1 exon
TCAGCCGCTGCTAATGCCAGGGGCCCCAAGGCAGCCCCGAGTCCGGGAGGCTTGGACGACAGCACGCTGCCGCTGGTGGAAAAGAGCCTGG
Seq A exon
GTGAGTATGGGGCCAGAGCTCATCCCGAGGTTCAGCTGTGCCCCTCTCCCGGCCGAGGGCTACAGGGAGGTGGGCCTTCCTCCAGGAGGATGGCCCCCACTCTTCGCACCCCCTACCCCCCGGGCGTTCACCTTGGCACCAAGCTGGGGGCGGCTTTGCCAGGGAGCAAATGTTGGTGACAGGGTACCCAGAGTGGCTGAGGCCAGGCCTGGGCCCCCGCCACCACCTGCAGCCAGCCACCCATACGCTCATGCCTTGCAG
Seq C2 exon
ACGGTGAGAAGCCAGGTGGCCGGGACATGATCCCCATGGAGGCGCTTGGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001473:ENSBTAT00000001929:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
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:
CCGCTGCTAATGCCAGGG
R:
TGGACCAAGCGCCTCCAT
Band lengths:
140-401
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development