DreINT0025798 @ danRer10
Intron Retention
Gene
ENSDARG00000018968 | acvr1ba
Description
activin A receptor, type IBa [Source:ZFIN;Acc:ZDB-GENE-980526-527]
Coordinates
chr23:27880969-27883097:-
Coord C1 exon
chr23:27882855-27883097
Coord A exon
chr23:27881215-27882854
Coord C2 exon
chr23:27880969-27881214
Length
1640 bp
Sequences
Splice sites
5' ss Seq
ATGGTAGCA
5' ss Score
0.53
3' ss Seq
CTTTTACCTGCCTCTTTCAGGGA
3' ss Score
11.02
Exon sequences
Seq C1 exon
CTCTCAAGTGTAACTGCACTGCTTGTGAGAGCACAGGTTATGTGTGCGAGACAGATGGGGCCTGCATGGCCTCCACATCCTACATCAATGGGCAGGAAGAGCAGCAAGTACGGATCTGCATCCCTCGGGTCAGCCTGGTTCCTCCTGGACAGCCCATCTACTGCTTGAGCGCTAAAGGCCTGCTCAACACGCACTGCTGTTACACAGACTTCTGCAACAGCATCAACCTCCAGATTCCCAATG
Seq A exon
GTAGCAGTACAGGCCAAACACAATACCTTTCAAATGTTTGGGGTCAGTAAGGCTTTTTTTAATGCCTTTTTTTTCTTTATTCAGGAAGGATCAATGGAATTATGTGACATCATTTACTACAAAAGATTTATATTTGAAATAAATGCACTTTTTAAAAATTTCTATTCTTTAAGAGATTTTCGAAAAGAAATCTGTTTTGTGTTTGTTAAAAATATTAAGGCCGTTTTCTCTATGAATAGTATTTTATGTTTATAGAGTTACAGAAAAATGAATAAAAATTCAGGTTTGCTATCCTAAGTAAATTAAATTTTAAAATGCATTAAAATATTTTGGTCACTTTATCTTGATGGTCTGTTTGTTGAATTTAAGTTACATTGCATCTACATGCCAGCTAATTTTCATTAGATTATAAGTAGAATGTTAGGTTGGGGTAAGAGTTCATGTGAGTTAACATGTATCAACAGATTTTAAACAGACATTCGACTAATACTCAAATGGACCATCAAAGTAAAGTGGTACTGATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATAATTATTGTTATTATTATTTATTTATTTTTTTTTAACTGTAGTAATATTTTGCAGCATAAGTGATTTATTTTATTTTTTATTTTTTTAATAAATGGAGCATTGGTGCATGTACACATTGCTTTAAAAAATGTCTTGCAACCTCAAACTTTTGAATAGTAATTTTAGTTGGCAACCGAAATGGAATTTTATTTACTGCAATACTTGCTTTATGTAATCTGCATTGTCAAAATAATGAAATGTGGCATTTGACATTTACTTCTGCTTTCATTTAACACTCAATTTGTTTTATTAATCTTATGAAAATCTTAGAATTTAACTTCACTGTTAAGCTTAATGTTAAGCAAATTGAAAGATGAAAATATATAATTTTTTATAACACTGGTGTCCAAGCCAGTTCCTGGAGGGTCACAGCTCTGCACATTTTAGTGCTTACCCTAATTAAACACACCTGATCAAACTAATTGAGTCATTCAGGCTTGTTTGAAACTGCAGTCGCACTGGACCATAGACTTGCGTTCATACGCACATGAATACGTCAGACCGGAAATGCAAGCTTGTGCGACACATTTCGCAGTTCGCTGAGTTTCATAGTTTAAGCTTGGTGAACTCTGACCTGTGAAATCGCATTACTTGACTGAGTGAGACCAACCGAGGATCAAAACGTGACCTCTCTGAACAGAAATTTTAAATATGGACCAATCTCTCGCTTTTTTTAAATGTCTAATCTTCTTGTTTAATCCCACTCCTTTTCGCTGCGCGATACGACAGAATTTTGCAAGCTCACTCGAGTGTGACCGCAGTATTAGTGTGTTAAAGCAGGGTTGGAACTAAACTGTGGAGGGCTGCGACCCTCCGGGAACTGGCTTTGACACCTGTGCTTTATAACTTGTATTTTGTATAAATTCAACAGAATTCTTTTTTTTCAATGTTGTTTTTAGTGTTAAAATATAGTAGTCTAGAGAAGTTGACCATTTGTCTCTTTTTAGCCATAACATGAAAATGATCTTCCTTTTACCTGCCTCTTTCAG
Seq C2 exon
GGATTGCTGATGGTAAAGGAGGTAGTTGGGGTCCGGTAGAGCTGGTGGCAGTGATAGCAGGCCCGGTCTTCCTCTTTTGCCTGCTGCTTATCGTGGGAGTGCTCCTTTTCCAGCACCACCAACGAAACTATAACCACCGGCAGCGACTGGATGTTGAGGATCCATCCTGTGATCACCTGTACTTGGCCAAAGACAAGACCTTACAGGATCTCATCTTCGATCTGTCCACCTCTGGTTCAGGGTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000018968:ENSDART00000023094:2
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:
PF0106418=Activin_recp=WD(100=96.3)
A:
NA
C2:
PF085157=TGF_beta_GS=PU(58.6=20.5)
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:
TCCTGGACAGCCCATCTACTG
R:
CAGACCCTGAACCAGAGGTGG
Band lengths:
347-1987
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]