GgaINT0057646 @ galGal4
Intron Retention
Gene
ENSGALG00000009474 | ACTN1
Description
alpha-actinin-1 [Source:RefSeq peptide;Acc:NP_989458]
Coordinates
chr5:27560822-27561552:+
Coord C1 exon
chr5:27560822-27560930
Coord A exon
chr5:27560931-27561411
Coord C2 exon
chr5:27561412-27561552
Length
481 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
TTCTTTTTGTGCATGCTTAGAGG
3' ss Score
5.27
Exon sequences
Seq C1 exon
TGAGCTGGACTATTATGACTCTCCGAGTGTCAATGCCAGGTGCCAGAAGATCTGTGATCAGTGGGATAATCTGGGTGCCCTAACCCAGAAACGTAGAGAAGCTTTAGAG
Seq A exon
GTGAGTCATATCTCCAAATGGATCTTTGGGATTACATGAGTAGGTCATTTGCGGGAAACAAGCTGCAGTGGGCATGTATGTCCTATTTCAGCCCTTTTGTCCACTTCTAGAAATCCCAGGCTGTAACCCAGAACTGCATCTCAGTATATTTAACCTCCTTCTCTGTTTCCAGCCCAGTTACAGTAGCATTCATTTGCTCAGGCTATTGATTTATTTCTAGTCCTCTGTGTTTGTAATTTTATTCTGCTTGAAAAGACTCGTTTTGTTTTGTTTCAAAGGACCTCGTACCTTTTCCTCAGAGCAAGGAAAAAATCCCTCCTGTGTGTAATGTCTTATCGAAGACTTTTGCTGTAGTGCCCTCCTGAGAGTACCAAGCAGGTCTAAAAGGAAGGAGCAACTCAAAGAACCCTCATATCTGTGTGATTTTTATTCTCTAACCATCTTCCCTGATTTTCTTTGTTTTCTTTTTGTGCATGCTTAG
Seq C2 exon
AGGACAGAGAAGCTACTGGAAACAATTGACCAGTTGTACCTGGAATATGCCAAACGAGCTGCCCCCTTCAATAACTGGATGGAAGGGGCCATGGAGGACCTGCAGGACACGTTCATTGTTCACACCATTGAGGAGATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009474:ENSGALT00000038021:14
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(34.0=100)
A:
NA
C2:
PF0043516=Spectrin=PD(0.1=0.0),PF0043516=Spectrin=PU(32.1=76.6)
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:
AGCTGGACTATTATGACTCTCCGA
R:
CTGGATCTCCTCAATGGTGTGA
Band lengths:
248-729
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]