BtaINT0021840 @ 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
chr17:74929359-74930803:-
Coord C1 exon
chr17:74930718-74930803
Coord A exon
chr17:74929995-74930717
Coord C2 exon
chr17:74929359-74929994
Length
723 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
CTTCCCTTTTCCGCCCGCAGGGC
3' ss Score
13.58
Exon sequences
Seq C1 exon
ACGGCTACTCCACCATGGACAGGAGGGAGCGTAGGCCTCGAGGCAGTGACCCAGCGGGGGAGACCTCTGAGAAGGAGCCGTTGAAA
Seq A exon
GTGAGTGGCCTTGGGCATGTCCGGGGCGGGGCCTGGGGCGGGGCTGTGGCTCTCCTGGCTGGGGAAGCCGGGCACCGGTCCAGTTCGAGGCTGCACACGCACCCTCCCTCCTCAGCCCCGCCCCCACGGCAGCGCCGCCTGCTCTGCGCCTGTTCTTCTGTCCCCCAGCCCCGCTGGCGCTCAGCCCTCCCCTGGCACACACCCCTGCCCTGCTGACCTGCCCAGCTCCCACCCGCCTGCTCATACTAACCTGCTGCGTTCTGCCTCTAACGCCCGCCTGCCCGCTGCCCGCCCGCTGCAGCCCGACCCCAGCAGGAAGGCTCCTCCGCCCGGGCCCAGCAGGCCTGCGGTCAGGCTGGTGGACGCTGTGGGGGACGCCAGGCCTCAGCCTGTCGACTCTTGGGTCTAGCTTGCATGCCCGGTACGTCCCTTCTGGGTTCTGCGTCAGGGTGGGGCCTCCTCCCCGTGCCGCTGCCTGCCTGCCTGCCTGCCTGCCCTGCTCTCCCTGCACGCTTCCTGCAGGGCCACCCCAGCTCAGCGGAGGGAAGCCCAGGTCAGGGGCGGGGCGGGAGGGACCCTGGGCCATCGGAGCCTGGAGGTCACAGGGTGAGATGGGGGCTGACCCTCCACACCTCCCAACGCCCCAGCACAGGGCCCCCCGAGACCCACCTTCCCTCAGCGGCCGTCAGCAGGCCTGCTCAGGCTTCCCTTTTCCGCCCGCAG
Seq C2 exon
GGCCTGGGCCTGGCCGTTTGCTCTTAGGGTCTGACCCCTGAAGACACCGCGGGAAGGGGCGCCTGGACGCCCGTGCAGAACCCGCTGCGGAGCTGGGAGCCCTCTGGCGGCGGGCTGGGCGGCGCCTCCCCCTCCAGCCCTGGCTCCCCACTCCTAACTCCCGGGCGAGTTAGCGTCCTGACATGGTGCTGTGTGCAGCGTGCGCCTGGGAAACCCAGGCCAGGGTGCCCGGCGTTGCTCTGGGGCCAGCGGGGACCCCGCGGAGTGCGGACGGGTGAGGAGGGGGCTCAAGGGCAGGGAGTCTGGCCCAGAGGCTGCAGGGGCTTCCTTGGGCCCTGAGCAGGGGCGGCGCTGGGGGACAGCCCCCGCAGAGACCCTGAAGGCAGAGAGCGGGGGCTAGCTGTGCGTGCCCTGCCCACTGCCCGCCGCGCCGGGAGCCCCTCCCTGGGCACTGTGGCCCTCGAGTGGCACCTCTGGGTCTGGCCTTTGGCAGCAGTGGGGGGACCGCTGTTGAGTGCCTGCTGTTTGCGGCTTAGAAACCAGAGAGACACTGATAAAACATCAATAACAAAACCAAACTAAGACTGTTGGTAGACATCTAAATTTTTGTAAGAAAAATTAAAAATTATAACAAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001473:ENSBTAT00000001929:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.500
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGACCTCTGAGAAGGAGCC
R:
CCTCTGGGCCAGACTCCC
Band lengths:
342-1065
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development