GgaINT0081781 @ galGal4
Intron Retention
Gene
ENSGALG00000014463 | ACTN2
Description
Alpha-actinin-2 [Source:UniProtKB/Swiss-Prot;Acc:P20111]
Coordinates
chr3:36970978-36972431:-
Coord C1 exon
chr3:36972339-36972431
Coord A exon
chr3:36971209-36972338
Coord C2 exon
chr3:36970978-36971208
Length
1130 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAG
5' ss Score
8.27
3' ss Seq
TGTTTGTGTTGATTTGAAAGCTT
3' ss Score
3.88
Exon sequences
Seq C1 exon
GCTGAGACTGCAGCAAACCGGATCTGTAAGGTGCTTGCTGTGAATCAAGAAAATGAGAGGTTGATGGAAGAGTATGAGAGACTTGCAAGTGAG
Seq A exon
GTAAAGACAGCCTTTTCTGTAACATGGTGATAATTCGGTTCATGAAATACTGAAAGCTGAAAGATTCATGTACTGTCTGCAAGGCAGAAAGTGAAAATATTATTAAGGTGAATCTCACAGTTGTAGGGTACAAAGTTCAGTATCCCAAAAATGTCAAATATCAGGTCAGTCCTTTGCCAGAGATTTCCTGTGTGACCTCCAGCAAGTCATTCAGTCTTGTTTTCTTGTGCCAAAAAGGGTGTTTTGGGGACTGTCATCAGGCTGCCTTAGGACTAAGCTTGTTGTCTCTGTAACCTCCAGTGATAGCTCTTCCATCACCACACGTGGAACGTACAGGATTCTTTTACTCCAGGCCAGCCCACTGGCTTTATATACTGCAAGCTGTACCTGGACAGGGTCTCAGGGTGTTCACAAAACACCTGTGAACCCATACAGCAAATGAATGGTGAAGGCACACTGCTTGTGTTGTTTCTGATTATTACCAGAAGATTGTTTTTTTTTTTTTTTCCAAAGCACAGGTAATATAATTTTTCTTCACGAAGTATATACTGCAGACTTTATGAATCAGCTCCTCTTGTCTTTTCTTGGTATATGGAAAATCTATTGTGTCAGGACTGCAGATATGTAGTGCATGAGTGAGAGCTCCTTTGTCTTTATAATGCACAACCTCCAAAAACATACAGAGATGATAGACACAATGAGAGTAGTGCTGGATTGGTACTGAGGACTTCTGCACAAAAACATTTACATGTCTTGAGTTACTTGACTGATGTCCATTCTTATTTATGAACTATGACTACTTGAGACATCAGTACCAATACTTTTGAAAGTGGCCAGTGATACTGGGTAACTTGTGTTTTAATTACCTGGAGTCACCTTATGTACATGTCCGTGTTCATACCCTGAAAGTCAAGGTATTTCCAGAAGTATCTAGAATATCTGAGAAAGTTAGGGTTATTGTTCTGTTGAGAAAATTTTGTTCTTACTTGCCATTAGGACCCTGACTCCAACTGAAGTTAACAATAGTAAGATGGAGAAAACATGATTGAAATTTATGCATTAAATATTATCTTTTTGTTGTTGTTGCTCTTCCATTGCCTTAATTTAAATTGTTTGTGTTGATTTGAAAG
Seq C2 exon
CTTTTAGAATGGATTCGCAGGACAATTCCTTGGCTGGAAAACAGGACCCCGGAAAAAACAATGCAGGCCATGCAGAAGAAATTAGAGGATTTCCGGGACTACCGCCGCAAACACAAACCTCCCAAAGTTCAAGAGAAATGTCAGCTGGAGATCAATTTCAACACCCTGCAGACAAAACTGAGAATCAGCAATCGACCAGCTTTCATGCCATCGGAGGGAAAAATGGTTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014463:ENSGALT00000023354:9
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=PU(9.9=35.5)
A:
NA
C2:
PF0043516=Spectrin=FE(68.5=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:
TGAGACTGCAGCAAACCGGAT
R:
ACCATTTTTCCCTCCGATGGC
Band lengths:
318-1448
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]