GgaINT0000950 @ galGal3
Intron Retention
Gene
ENSGALG00000014631 | ACVR1B
Description
NA
Coordinates
chrE22C19W28_E50C23:11600-13253:-
Coord C1 exon
chrE22C19W28_E50C23:13014-13253
Coord A exon
chrE22C19W28_E50C23:11849-13013
Coord C2 exon
chrE22C19W28_E50C23:11600-11848
Length
1165 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGG
5' ss Score
7.93
3' ss Seq
CTTCTTGCTTCCCTCTCAAGGAC
3' ss Score
9.29
Exon sequences
Seq C1 exon
CTCTGACATGTCTGTGCTCTGACTGCAAGCAAGCCAACTCCACCTGCGAGACGGACGGCGCCTGCATGGTGTCCGTCTTCAACCTGGATGGGGTGAAGCACCACGTGCGGACCTGCATCCCCGAAGCCAAACTGATCCCTGCTGGGAAACCCTTCTACTGCCTGAGCTCCGAGGACCTGCGGAACACCCACTGCTGCTACTCTGATTTTTGCAACAAGATCGATTTAATGGTTCCCAGCG
Seq A exon
GTGAGGAGGGAGCTCAGCACGTGGGGTGGATGTGGGGAGGGGAAGTCTGGCTGCTCGGGGCTGGGATTGAGGCGTTCCCAGCAGCGTTTTCCCTGCTTCCCTTTGGTTGCTGTGCAGACTCGAGCACTGGGCTTATTTCCTTGATTGGTGAAGTGGAGGGAATAACGAGCTGCTTCCAATTAACACGTGGAGTTGCTCGAGCTCCCCTGTGGCAGACGAAATGTCAGCAGATGCTGAGGTGGTGCTTTGGGCCGGGGGAAGCTTTCCTCATTGGGTTGTGGTTGGGTTTTTCCCCCTCCCCCCCCACCTTCACATGATGACACTCCTCTCCTTATCAACCCTGATCTCCACGCAGACTCCTGGAAGCAGCAGCAGATCTGTGCATCTGCACTTACATACGAGCTTCTGCTGCACGGTGCTTTGCATCTGCATGGCCTGAGCACAGCAGGCTGTGTGTTCCCTGGGCACAGCTCGGGTCCCTCTCCCATCCCTCTGTCGGCTGTGCTTTCCTCCCTTTGGGGCTGCACACCTCCGTGGTGTGGCGGGGGGAGGGGAGCAGAGCGGGGCGGGGGGGTGCTGAGGAGGCAGCCCTGCCCTGCCTGGGGGTGTGGGAACGTCTGCCCTGGGACAGAGAAGTGCACAGAACTTCCTCATAGCTCTGCATTTCAGGTTGCTGTGCCGTGGGTCTGAGCAAGGCTGTGGGATCCGCTTCCTTTGTGTGCAGTGGGGGAAGGCCTGTCTGTTCTCAAGGCGAGCGGTTGCTCTCATTGTGGACAAAGGGACAAAGGGAGTGGGGGCAAAAATGGGTCCTTCCTTGAGTGCTGCTTGATGTTCCCCCCCCTTTTAGAGTGCCAGGGCACAGTAAAGCACAGCTCAGAGAAGCAGGGCTGGCCCAGGGGAGGCTCCCACCCTGCTGAGCAGCAGGAGCTGCCATCCCCAGCGCCACAACCAAAGCACTGCTTTCGTTTGCGGGTCCTCCCTGCAGTTTGGCTGCCTGGCAGTGACCATCCCTATGTTAACACTGCTGTTTGGTGCATGCTCTGCCATCCCGGGCCAGCAAACAAAAAGTCCAGGCTCTGAGAGGAGAATTAAAGCACGAGGAGGTCCTCAAAGAGCACTTGTGAAGGGGTGATAGCGTCATGTTTCTTCTTGCTTCCCTCTCAAG
Seq C2 exon
GACACCTGAAGGACAACGAGCCCCCATCAAGCTGGGGTCCGGTGGAGCTGGTGGCAGTGATTGCTGGGCCCGTCTTCCTCGTCTTCGTGGTCGTCATCATTGTTGTCTTCGTGTTTCATCACCACCAGCGCGTCTATCACAACCGGCAGCGGCTGGACATGGAGGACCCCTCTTGTGAAATGTGCCTGTCGAAGGACAAGACGCTGCAAGATCTCGTCTACGATCTCTCCACCTCTGGCTCTGGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014631:ENSGALT00000020492:2
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:
PF145751=EphA2_TM=WD(100=66.7),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:
CATCCCCGAAGCCAAACTGAT
R:
ACGAGATCTTGCAGCGTCTTG
Band lengths:
342-1507
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]