DreINT0025838 @ danRer10
Intron Retention
Gene
ENSDARG00000018179 | acvrl1
Description
activin A receptor type II-like 1 [Source:ZFIN;Acc:ZDB-GENE-021003-1]
Coordinates
chr23:27918737-27920966:-
Coord C1 exon
chr23:27920867-27920966
Coord A exon
chr23:27918884-27920866
Coord C2 exon
chr23:27918737-27918883
Length
1983 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
GCTCTGATTGCTTCTGGTAGGTA
3' ss Score
5.37
Exon sequences
Seq C1 exon
GATATCTTTGATGAGTTTTGTACATCGGGCAGTGGCACTGGTCTGCCCTATCTGGTGCAGAGGACCATGGCGCGACAGATCTCTCTGGTTGAGTGTGTTG
Seq A exon
GTGAGTGAAACCGATCTCATTACACTCATTACAATGCTGCATAGGAGGATAATAAAACTACAAAGTAAAGTTGAGGGTGTAGATGTGTCCTATTCTGTTATAGAGCTGCACAATATATAGTTTCAGCATCGATATTACAATGTTTGTTTTAAGTTGAATCTTAATCATTCTTGACCAGGAGCCATAGAACACATGATTATAGAAAGACTGCTAAGTTTAACCATAATAGAGTGAAAGTTTACCATTTGCATTTTTTAAGGCATGTGACTGTACATTTCAATAGAGTTTAAAATATTTGGACACAAAAAACTGTTAAGATTAATTGTATTTCATTATTCTTACGATTTATGAAGAAGACAACAACAACATCTTTCATTGTTAGATTTTTTTTACTTGTTTTCCTGTCCAAATGTCTATATTTCTTATCCTATTACAGATAATTTAGCTTTCACTTGATTTAAGAATTTTTAGATTTTTGGACAAGAAACTCACGGAGACCCGGAAGGGATGTAATGGAGAGGGAAAAAGCTGGGTGGGAGAAAAATAAAAAGAGTGATAGGTAAATAGATATTTTTTTAAGTTTTTGCAATTCCTCGCAAAGACTGCATTATCTCGCAAAGATGTTTTTCCACAAACACTTCCTGTTCACTTTATACATGTCAACCCTCCCGTTTTTGCCAGTATTCTCCAGTACTCCATTGTTTTAACTGTTTGTGCTCATTTAAGAGAAAACTAGTTGAGTTCAAAATAAAACACGCTGGACGGACAAGTTTACATATTATTAAGTGTATTGGTCTGTTTAAAGACACACCCAAACCCCAAAGTGTCTTGCACTTTAGCTCCTCTTTAAATGGCGTGTACAGAAGCTGATCTGGGATCAGTTTATTATGCAGAGCGCGTCCATCAGTCAGTGCTTTTACATGCATTCGCTGATTTAGAGGTTGCTTATGAAGGGTGACGATCGACGCACAGCTTTAATGGAAAGAAAGTGAATGCAAGCAGTTTTATCCAGCAACGCTCCAGGGACAGACGAGTCTTCGCTGAGGCCATCTTCCAGCCTCCACTGCGGTGACTGAAGCTCTGCACACGACTTTTGGCCAGCGGAGAAATTAAAATGGTCATGCCAAACTGAGTCTGGTTCTCTCAAGGTTTTTTTTCTTCACTCCCATCAGGTGAAGTTTTTTTTCCCTCTCCGCTGTCGCCACTGGCTCGCATGGTTCAGGATTGGTAGAGCTACGCATCGATGAATTTGCTCTTCAGTGTTTGAACTCTCAGTAATAATTAAATCACACTGAACTGAGCTAAACTGAACTGTACTGAACTTAAACACTAAAAACTGAACTACACTGTTCCAGTTACTATGACCGTTTATGTGAAGCTGCTTTGACACAATCTACATTGTAAAAGCACTATACAAATAAAGCTGAACTGAACTGAATTGAATTGAATTTTATATAATTACAGCGCGCTTTTAAGATTAAAAATATATGAGAAATATGGGAAAACACTTAATGATAGGCTGATAGCAGGATAGAATGGTAAAATATAGGAGAATACTGGTAAAAACGGCAGGGTTTACATGTATGAAGTAAACAGGAAATGTTTGTGGAAAAAACAATTTTCCCAACCATTGCGTCCCTTCCAGGTCTCCATAGAAACTAGACAAAGCAAAGTAAGAAAAGCATTTTTTTCATCGTGATTATTCAATTTCTGTACCAGAATACTTTTGAAACTTTTAAAACCATCTTGTAAAACCATATTATTATAACAATATACATTACAGGGAAATAAAATAATGCAATATCAGATTTTTTCAATATTGGCAGCACAACATCATTACCTATTTATTACTGTATACCTTTACACATTATTTAATTTTGATTTTTTCAGAATTTCAGAAAAATTATAAGTCATGGCCATACCTTATTATAATGATATGCATCTAGCTTTAAAGGAATTTTTTGCTCTGATTGCTTCTGGTAG
Seq C2 exon
GTAAAGGCCGTTATGGTGAGGTATGGAGAGGCACCTGGATGGGAGAAAGTGTGGCTGTCAAGATTTTCTCCTCTCGTGATGAGCAGTCTTGGTTTCGAGAGACTGAAATCTACAACACGGTCCAACTAAGGCATGAAAACATCTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000018179:ENSDART00000043462:6
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:
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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATGAGTTTTGTACATCGGGCA
R:
CCAAGATGTTTTCATGCCTTAGTTGG
Band lengths:
239-2222
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]