DreINT0025800 @ danRer10
Intron Retention
Gene
ENSDARG00000018968 | acvr1ba
Description
activin A receptor, type IBa [Source:ZFIN;Acc:ZDB-GENE-980526-527]
Coordinates
chr23:27879067-27880880:-
Coord C1 exon
chr23:27880650-27880880
Coord A exon
chr23:27879235-27880649
Coord C2 exon
chr23:27879067-27879234
Length
1415 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
AATATGTTTCTGTTTCTTAGACA
3' ss Score
7.32
Exon sequences
Seq C1 exon
GGCTGCCCTTGTTCGTTCAGAGGACTGTGGCCAGGACAATTGTACTGCAGGAGATCATAGGAAAAGGTCGCTTTGGGGAAGTGTGGAGGGGGAGATGGAGAGGAGGTGATGTGGCTGTGAAGATCTTTTCATCCAGGGAGGAACGTTCCTGGTTCCGTGAAGCTGAGATTTACCAAACCATCATGCTCCGCCATGAAAACATCTTGGGCTTCATTGCTGCTGATAATAAAG
Seq A exon
GTAAGACAAGTCATGTTACATGTCATTATGTTCACCCAATAAGTTGTTAAAATAAAATATGTAATTAATAATTTAAGGTCTGAATGAAATGTAAATTATGGTTATTTAAACATTCATTTTAATAACTTTGTAATTGTAGCATTACAGAATTATATTATATTATATTATATTATATTATATTATATTATATTATATTATATTATATTATATTATATTATATTATATTATTAAAGGGGTAGTTCACCCATTACTGAAAATTCTGTCATGTACTCATCCTTCACTTGTTAACCTATCTGAGTATTTTTAATTTTTTTTTTTTTTTGATGCTGGTTGCTAGCACCCATTGCCTTCCATAGTATTCAATTCAATTCAGTTCAATTCAATTCACCTTTATTTGTATAGCGCTTTTACAATGTAGATTGTGTCAAATTGTATTTTATTACTACTATAGAAGTCGATGGGCAACCAGCATTTATTAAAGTATTTTCTTTAGTGTTCAACAGAAGAAAGAACGGTTAAAAACCACTTGAGGGGGAGTAAATGATGAGTTAGTTTTCATTTTTGGATGAACTAGCCCTTAAACAGGGTTCATACGGTCATGGAAAACCTGGAAAAGTTTAGGAAAAAAAAACACAAAGTTCTGGAAAATTCTTTTGAAATTAGTTTAACAAATATCTGTATGCTTGAATATCATTCATTTAGTTGTCTTTTACAAGGTATCCGTGTGGTCTTAAACTGTTTTAATGTCTTAAATTTCAAAAACGATTTTAGGCCTTAAAGTCTTAAATTGACAAATATTGTGTTGTATGTCATAAAATAATAATAAACCGATCTTAATTTTCCTACGTCCATGTAAAGTAACTAAATCGGCCTGACACCTGTTCAAGCGCTAACATTACATCTCAATAAAAGTTATAACAAAGGTTTATTTATCAACTCTATTGACAAATTATGGTTTAATTATCTTCCTCACAACATTTGTTTTTATTTTTTTAACTGGGTCGTTAAGCCTTGTGTAAATCTGAAATTTTATTCATAATGGTATTTTAAAAAGTCTTAAAGTCTTAAATTTGACTCGATGAAACCTGTAGAAACCCTGCTCTAGTCTGTCCTTGGCCAATCACATGCCCTCACATTAGTAGTGCTGTGTAAGCATTATTTAAATACATTTTACATAGATTTGGTGTTTTATGATATGGTGTAAAACATTTGAACGTGCATTGTTTTGTTTTTTTATCGTTTACCACGTATACGTAGATATTACAATAAAACATCAGGTCATGAAAATGTACTTAACTCATGGAATTTTAGTAGTAAAAAAATGTGTATGAACTGCTTTAAGTGATCAAACATTCAGAGTAATTTTGTTTCATTTTTTAATATCTTTTTGGTTTAAATATGTTTCTGTTTCTTAG
Seq C2 exon
ACAATGGCACATGGACACAGCTGTGGCTAGTGTCAGACTACCATGAGCATGGCTCATTATTTGACTATCTCAACCACTACTCCGTCACAATCGAGGGGATGATCAAGTTATCGCTTTCAGCCGCCAGCGGTCTGGCACATCTGCACATGGAGATCCTGGGCACACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000018968:ENSDART00000023094:4
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(37.9=14.1),PF0006920=Pkinase=PU(22.2=82.1)
A:
NA
C2:
PF0006920=Pkinase=FE(19.4=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:
GTTCGTTCAGAGGACTGTGGC
R:
GCGGCTGAAAGCGATAACTTG
Band lengths:
345-1760
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]