GgaINT0045648 @ galGal3
Intron Retention
Gene
ENSGALG00000012551 | ACVR1_CHICK
Description
NA
Coordinates
chr7:37906002-37907942:-
Coord C1 exon
chr7:37907843-37907942
Coord A exon
chr7:37906149-37907842
Coord C2 exon
chr7:37906002-37906148
Length
1694 bp
Sequences
Splice sites
5' ss Seq
TAGGTCAGT
5' ss Score
6.39
3' ss Seq
TGTGTTTCCTCCCTGACCAGGAA
3' ss Score
10.13
Exon sequences
Seq C1 exon
GATTTATTGGACCATTCCTGCACATCTGGAAGTGGTTCTGGACTTCCATTCTTGGTGCAAAGAACAGTGGCTCGCCAGATCACGCTTGTGGAGTGTGTAG
Seq A exon
GTCAGTAGAAATGTTGTTTGCCTTGTTCCAGGTCTGGGTAAGAAACGCAGACAGAAAGCTCTGTCTGGCATCCTAATCACCTTTTTCCTCAGTTGTGCTTACATTATATGAAACTTTTCATGCTTCAGCTTACGGAATGCATTTCTGCTTTGAAAGGGGGATCATCCTTTCAGATCTATGTGGAAGACAGCAAATATCATCTGTGCTTTGTAAGGAAAAATTTGACCTTTTTTCAGGAAGGTAATGCTGGAGAGTACAATTGAGGAGCATTTGAGTGGGCGCTTTGTAAGCTAGATGGACTATATGTTAAGAGAAGCAGGCACCATGTGGAGTTAGAAACTATCTAACACATTTGTAAAGCAGCAAATGGTATTCAGTTAGCCTACATGGCAGAACCAGATGGAAGCACTTTGTAGGAATTCTCTTCTGGGAGACAGCATTGAGATGTCACTGTTGGGTGTCTGCCTGCAGCTGATCTGTATGTGTCCCTTTGGCACAGCCACGAAGGGCAGAATGTGGGTATTTACAGTTGTCAAATCCAGCAGAGTGCATTGTGTGAACACTGAGGCTATGGTATTCCAGCTGTGGTGGAGATGATCAGAGGCTTACCTGTTGTGCCTTCTCCAGGTTGTTGCTTTGCTTTTGGGTGTTTAATAATTTAATATCGCTTTAAGCTCCTTGGGTAGAAAGATTGGGATGCAGGCAGTGTGTCTTGATCCTTACCTGATGTTTTGGTGATCGTCTTTGGTGTTTCTTGTTGTTGTTTATTGATGTTCTTCATTTTATACCAGGCTATACTAGCAAGTATTCCCTTTTGCAAGGGAAGTACAAAGGTTTCCCGTAGTGTTTGTGTCCTTTCTGTCCTCCTAACCTCAGAATTCATGGGTTTATTTGTATTGCCTACAGGGACCTGTAGTACATTGCCTAAGTTACTTAAGCAACAGCAGTGCTGTCATTGCTGGCAATGGAATCATTTCCTTGCCCAATACTAACACTGGATGCGGTACTGGTGTGCAGGGAGGAGAGAGCTGTATTTATCAGTGCGTGCAGTCTAAACATACAGAAAAAAACAAGGGACAGGGGAACACACTGTGTGTGTAGAGTAGTAAGACGTTCTGCAAGGTGCTGAAATGTCATTAGTGAGCTGTGACTGAGTTTGGGTTTTGTTGAGAGAAGGGGGAATTCAGAGAACTCTCCAGTCATTGTTCATCTCTTATTTCATGCCTTGACTGCTTCTGGCATCATGGAGCTGAGGGAGCCCCTCTTCAGGGAGCTGTGTGTGACATGTTTTCTTTCTAGACAAAGCAGAAAAGGAATTACTGCAAGGAACGCATTGTGGGAAATGTTAGATGCAAATATGTCAGATTGTAGAGAAAATACAGATTTTGCTGTGTCCTGTAGATTTGTTCAGCTGTGGTACAGCTAACACCCACAGTATTTGACGTGCGTGCATATGTACCTCTGTTTATGCATATTGGCAGTAATCTCATGCTGTTGCTAGAAACTTGGGTTTAAGGGCATATGTGTCTTTACATATTGTCCCGGTAATATTACATAAGGCAAAGGGCAGTGATGAGCACTAATTCTTTAGTGCCCTTATTTGGGAGGGGTGGATGTTGTCTGCTTGGCTGACTGTGTTCTTAACCCTGTGAGGACTGTTAGTTCACAGCTCTTTGTGTTTCCTCCCTGACCAG
Seq C2 exon
GAAAGGGCCGTTATGGAGAAGTCTGGAGGGGTCAGTGGCAAGGAGAGAATGTTGCTGTGAAGATCTTCTCTTCTAGGGATGAAAAATCCTGGTTCAGGGAAACTGAATTGTATAACACTGTGTTGCTGCGGCATGAAAACATTTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012551:ENSGALT00000020497:1
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=0.000
Domain overlap (PFAM):
C1:
PF085157=TGF_beta_GS=WD(100=73.5),PF0006920=Pkinase=PU(2.4=20.6)
A:
NA
C2:
PF0006920=Pkinase=FE(17.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATTTATTGGACCATTCCTGCACA
R:
TAAAATGTTTTCATGCCGCAGCA
Band lengths:
246-1940
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]