BtaINT0013509 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013843 | ACVRL1
Description
activin A receptor type II-like 1 [Source:HGNC Symbol;Acc:HGNC:175]
Coordinates
chr5:28104608-28105214:-
Coord C1 exon
chr5:28105115-28105214
Coord A exon
chr5:28104755-28105114
Coord C2 exon
chr5:28104608-28104754
Length
360 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
CTCCCTGGTTGCTGGATCAGGAA
3' ss Score
5.28
Exon sequences
Seq C1 exon
GACCTCCTGGACAGTGACTGTACCACGGGCAGTGGCTCAGGGCTCCCGTTCCTGGTGCAGAGGACAGTGGCTCGACAGGTCGCCCTGGTGGAGTGTGTGG
Seq A exon
GTGAGCAGTGGGTGAGCTCAGGGGATGGGGACCAAGTGCTCCCAGTGAGCTTAGAGGGGTGAGGGAGTCACAGGTGGGGCCAGGCCTGGGTCAGAACAGGAATTCTGCCAGTCAGGGAGGGGGTTGGAGATGAGGCAGTGCCTGATCCTTGGCCAGGAGCTGGGGTGGAGCAAGAGGCAAATGGAGGTGGCCTGCCAGAGGTGTGTGGGTCAGAATTCAGTTAAACAGAATCTTCAGAGGTTCTGCAGTCGGAGCCAGGGCAGCAATGTGAGGGGGGCCTCTTCTGAGGGTGACTGTGCCCAAGGGCTCTGTGTGTCCAGTATGTGATCCCCCCTCCCTCCTCCCTGGTTGCTGGATCAG
Seq C2 exon
GAAAGGGCCGCTATGGTGAGGTGTGGCGGGGCCTGTGGCATGGTGAGAGCGTAGCCGTCAAGATCTTCTCCTCCAGAGATGAACAGTCCTGGTTCCGGGAGACTGAGATCTACAACACAGTGCTGCTCAGACACGACAACATCCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013843:ENSBTAT00000018383:4
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:
PF085157=TGF_beta_GS=PD(82.8=70.6),PF0006920=Pkinase=PU(2.4=20.6)
A:
NA
C2:
PF0006920=Pkinase=FE(17.0=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:
GACCTCCTGGACAGTGACTGTA
R:
TAGGATGTTGTCGTGTCTGAGC
Band lengths:
246-606
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]