GgaINT0057643 @ galGal4
Intron Retention
Gene
ENSGALG00000009474 | ACTN1
Description
alpha-actinin-1 [Source:RefSeq peptide;Acc:NP_989458]
Coordinates
chr5:27556835-27557740:+
Coord C1 exon
chr5:27556835-27557065
Coord A exon
chr5:27557066-27557592
Coord C2 exon
chr5:27557593-27557740
Length
527 bp
Sequences
Splice sites
5' ss Seq
TCAGTGAGT
5' ss Score
7.68
3' ss Seq
TCCCATGCTCCTGTCTCTAGGAT
3' ss Score
11.32
Exon sequences
Seq C1 exon
CTGCTGGAGTGGATCCGTCGCACCATCCCCTGGCTGGAGAACCGGGCACCAGAGAACACCATGCAAGCCATGCAGCAGAAACTGGAGGACTTCCGGGACTACCGCCGCCTGCATAAGCCCCCCAAAGTCCAAGAGAAGTGCCAACTTGAGATCAATTTCAACACCTTGCAGACCAAGCTACGGCTCAGCAACAGGCCGGCCTTCATGCCTTCAGAAGGGAAAATGGTTTCA
Seq A exon
GTGAGTGGGCGTAATTGAGTGTATATACCCAAGCTGTTTCTAAAAAATGAAACTTGTTTATGTCTATTGGTTGGCAGAGCAATGCCCACCTTCACAGTGAGCTATTCTGTGGTAGAAACCCTACAGCAAACAGTTCAGTAACTTCGTGATAAGAGAGGAGCAAGAAATCATTGCTCCTCTGTCTCTAACCCAGACTCTGAGATTCTTCACAAATTCCATACCTTTATGAGGAGATGTCTGGGTGCCTCTCATTCTTTCTAATTCAGAAATGGTTGGGTTTTCCTGTATTTTCATGTGCAGGAATGTTTAGAGAGGCTCTCTCATGCAGACAGGTATATCCTGATTACTGCTAGACCTGCTTAAGTCTGACACTTTGTCTTCTTGACCTGTCTGCACAACCCCCTGAGATTAAAAGCCCACACCCATTCTCTCCAACCAGTTTGAACTGTGTAGCCTACTGGGAATAATTCTAAAGTACTTCTTCCCTAACTTCTAACCTCTGTTTCTTCCCATGCTCCTGTCTCTAG
Seq C2 exon
GATATAAACAATGCCTGGGGTGGCCTAGAGCAGGCTGAGAAGGGCTATGAGGAGTGGTTGTTGAATGAGATCCGGAGGCTAGAGAGGCTGGATCACCTGGCAGAGAAGTTCCGGCAGAAAGCATCTATTCACGAGTCCTGGACAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009474:ENSGALT00000038021:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=FE(68.5=100)
A:
NA
C2:
PF0043516=Spectrin=PD(18.9=42.0),PF0043516=Spectrin=PU(17.0=36.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGATCCGTCGCACCATC
R:
TTTCTGCCGGAACTTCTCTGC
Band lengths:
343-870
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]