DreINT0025802 @ danRer10
Intron Retention
Gene
ENSDARG00000018968 | acvr1ba
Description
activin A receptor, type IBa [Source:ZFIN;Acc:ZDB-GENE-980526-527]
Coordinates
chr23:27878599-27878979:-
Coord C1 exon
chr23:27878823-27878979
Coord A exon
chr23:27878724-27878822
Coord C2 exon
chr23:27878599-27878723
Length
99 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAT
5' ss Score
7.87
3' ss Seq
TGCTTTTTCCCCTTTCTTAGATA
3' ss Score
9.92
Exon sequences
Seq C1 exon
GGAAACCAGGCATCGCACATCGTGACCTCAAATCCAAAAACATCTTGGTGAAAAAGAATGGTACTTGCGCCATAGCAGATCTAGGGCTCGCTGTACGGCACGAGTCTATCACTGATACTATAGACATTGCACCCAATCAGAGGGTGGGCACTAAAAG
Seq A exon
GTACATCTGGCCCTGTCATTATTAATACAAATGGCTGCTTGTCTTTAAATGTAACTATGAAAACTTTAATGTAAGTTGTTGCTTTTTCCCCTTTCTTAG
Seq C2 exon
ATATATGGCCCCAGAGGTACTAGATGAAACGATCAACATGAAGCATTTTGATTCTTTCAAGTGTGCTGATATCTATGCTTTGGGACTGGTATATTGGGAGATTGCACGACGGTGTAATGCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000018968:ENSDART00000023094:6
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(18.1=100)
A:
NA
C2:
PF0006920=Pkinase=FE(14.6=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:
CATCGCACATCGTGACCTCAA
R:
CATCTAGTACCTCTGGGGCCA
Band lengths:
173-272
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]