DreINT0025805 @ danRer10
Intron Retention
Gene
ENSDARG00000052142 | acvr1bb
Description
activin A receptor, type IBb [Source:ZFIN;Acc:ZDB-GENE-131120-9]
Coordinates
chr6:2056969-2057657:+
Coord C1 exon
chr6:2056969-2057285
Coord A exon
chr6:2057286-2057408
Coord C2 exon
chr6:2057409-2057657
Length
123 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
GTTTTTTTTTTCCTTGTTAGTGA
3' ss Score
7.6
Exon sequences
Seq C1 exon
ATCATTTTGACTTCAACTGTATATGCGACACATGATTGAATACATCTGTGTCTGTTCTGTTGTGTTTGCAGCTCTGTTGTGTAACTGCACCGCTCCACACTGCGAGAGGGATGGCTTTAAGTGCGAGACGAACGGCGCGTGTGTGGCCTCCACCTCCGTCATTGAAGGACAGGAGCAACATGTGCGTCTCTGCATCCACAAGGAGAAGCTGGTTCCTCCAGGCCAGCCGTTCTACTGCCTCAGCGCTGAGGGTCTGATGAACACACACTGCTGCTACACCGACTACTGCAACAGCATCGACCTCAGGCTGCCAATCG
Seq A exon
GTGAGTTGCGGCACACATTTCCTGTTAATTTACTCACCCACAGGTCCTACATCCAAGATGTAGGTGACTTTGTATAATAATAATACAGTAGTTTAATTTAATAGTTTTTTTTTTCCTTGTTAG
Seq C2 exon
TGACGAATGGGCCTGGTGCTGGGCAGGACTGGGGGCCGGTGGAGCTGACGGCGGTGGTGGCGGGCCCTGTGTTTGTGCTGTGTGTGCTGGTTCTGCTGGGACTCTTCCTCTTTCAGCACCACCAGCGGGCCTACGGGCACCGGCAGAGGCTGGAGGTGGAGGATCCCAGCACTGAGCACATGTTCCTGGCCAAGGACAAGACCCTGCAGGACCTCATCTATGACCTCTCCACCTCAGGATCAGGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052142:ENSDART00000156716:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.024
Domain overlap (PFAM):
C1:
PF0106418=Activin_recp=WD(100=80.8)
A:
NA
C2:
PF085157=TGF_beta_GS=PU(58.6=20.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGTCATTGAAGGACAGGAGC
R:
GCACACACAGCACAAACACAG
Band lengths:
249-372
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]