BtaINT0013492 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018114 | ACVR2A
Description
Bos taurus activin A receptor, type IIA (ACVR2A), mRNA. [Source:RefSeq mRNA;Acc:NM_174227]
Coordinates
chr2:48394083-48395581:-
Coord C1 exon
chr2:48395438-48395581
Coord A exon
chr2:48394229-48395437
Coord C2 exon
chr2:48394083-48394228
Length
1209 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAA
5' ss Score
6.33
3' ss Seq
TTTTTTCCCCCTTTCTTTAGGGT
3' ss Score
12.63
Exon sequences
Seq C1 exon
GATAAACAGTCATGGCAGAATGAATATGAAGTCTATAGTTTGCCTGGAATGAAGCATGAGAACATACTGCAGTTCATTGGTGCAGAGAAACGAGGCACCAGTGTTGATGTGGATCTTTGGCTAATCACAGCATTTCATGAAAAG
Seq A exon
GTAGAAATATCAGTACTCCCCATTTTAACTCAGTAAGGTCAGGGTTGGCTTACTTTCCTAATGTTGGCTACAAAACCCTCACTTACTTTTCTGGGAACAGGGTGTATCTTTATAAATAAAAACCTGTTTTAAAAGTAATTTATATTAATAGAAAAACAAAGATGACAACTTTTTCGCCTAACCCTCTACTTATATAATACTAGTCTTTTGTCCCTGATTTCTTGTGCTGCAGTTACTTCTCTTACAAATAATTATTTTAGTATCAGTTCACTTCAGTTCAGTTGCTCAGTCGTGTCCGACTCTTTGCGACCCCATGAATCGCAGCACACCAGCCCTCCCTGTCCATTACCAGTTCCCGGAGTTCACCCAAGCTCATGTGCATCGAGTCGGTGATGCCATCCAGCCATCTCATCCTCTGTCGTCCCCTTCTCCTCTTGCCCCAAATCCCTCCCAGCATCAGGGTTATAGCCAATGCTTAATAATTTTCATTCGCCATTTACCATCCACCTTTATTACACAGGCCATTTTTCAACTTGAATTTTGTTTCTTAAAATTCTTTAATCAGTGTTGCTTAGTGACAGAAGTAATGTCAGGAAATTTATCTGATCTTTGATTTGTCACTAATTTGTAGGGTAGTTACCACCAAAACACATTTGCTATTTTTCCTCAATTTTTCTACTTTCAGAGTTAGTATGAAAGTATACATTAATGAAGTAGGAAATTGGGTTATTTTTGCCAGTCAGTTTCATCATTGTCAGAAAAAAGTGGCTCTTTTATTTCTCTGATTCTTGACCAAAAGGTTGTCAGTGATCTCCAGAGGAAGATCCTTTAGGTTAGTTGTTTATATGTTTTAATTTTTTGTTCTCCTAGTCCTATGATATAACATCTCAATAGTATATTTTAACTTCTAAAATATTTTCTAGAATTTTAGATTTCCAATAATCTTTTTTTTCTTTTAAATTTCATCTTCTAAATGAGAAATTAACTGACTATGCTTATAGCAAACCTTGAAAGATTAGTGGTATTCCTTTCAAATGTTTATTAACGTGAAACTTAAAACCATTCAGAAAGAAATGGACTTTGGATATTATTCACTGAAAGGAAAGATATGTTGGCTTCCATAACCTCTTAAAAGTAAAAAGGAAAGTCTCCATATACACATGGCTTTTATCAAGAACATAAGTTGTTTTTTTTTCCCCCTTTCTTTAG
Seq C2 exon
GGTTCACTATCAGACTTTCTTAAGGCTAATGTGGTCTCTTGGAATGAATTGTGTCATATTGCAGAAACCATGGCTAGAGGATTGGCATATTTACATGAGGATATACCTGGCCTAAAAGATGGCCACAAACCCGCCATATCTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018114:ENSBTAT00000024108:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(16.3=100)
A:
NA
C2:
PF0006920=Pkinase=FE(16.7=100)
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:
GATAAACAGTCATGGCAGAATGAA
R:
TGAGATATGGCGGGTTTGTGG
Band lengths:
287-1496
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]