GgaINT0081791 @ galGal4
Intron Retention
Gene
ENSGALG00000014463 | ACTN2
Description
Alpha-actinin-2 [Source:UniProtKB/Swiss-Prot;Acc:P20111]
Coordinates
chr3:36952174-36953340:-
Coord C1 exon
chr3:36953275-36953340
Coord A exon
chr3:36952333-36953274
Coord C2 exon
chr3:36952174-36952332
Length
942 bp
Sequences
Splice sites
5' ss Seq
TTGGTATGA
5' ss Score
5.24
3' ss Seq
TGTTTTGGATTCTCTGAAAGGGT
3' ss Score
4.38
Exon sequences
Seq C1 exon
AGGAAGAACGGACTGATGGACCATGATGATTTCAGAGCTTGCTTGATTTCAATGGGTTATGATTTG
Seq A exon
GTATGAATTTTAAGAAACAATGGCAATTGCTTACAGTTTGTAAAATTAACCACAGCAACACTAAAGCTGATTTAGGTTGATGGAATACTAATAATACAATTTACACTAGAGATACTACTTCCTTCTTTGTTTTTTTTTCTTCCATCTTCCAATGGTTAAAAAGGAAGTTAAATGCAGTTCTAGACAGCACCAAATACTAGACTGCTGCATTGCTCTTTGAAGGAAACTTTCAAAGTTGAAATTAACAGTTACTAAATGAATATATTTTATTATTCCTTCTCTATAAAATTTAAATTTTTGTCTGCATGAAGAAGGATAAGTGTGATGTTTTTTAATTCTTTTAATTCTCATAGACTACTTCTGGGCATTGCATTTGGTTTCCTTCAGTTATTTATTTTTATAATTTCCCCCACCGATACCACTTTGTTCTTTGTAGTAGAAAGATCTGCGTAAGTTGAACTGTCTGCTGTTTGGCATGAAATTTTCAGAATTGTTTCTCTTAGTTCTCAGTTCAATGAGTCTGCATGTGCCTTCCTGGGATATTTTTCCACCTCCCTGTGCAGTACCTTAATTACAATGGAAACATTATTGGTTTTAGGAGGGGGGTGAAAAATGCAGTGTTAAAACAAGTTTAACAAGTATTAGAATGGGAAAGAGGAGAAGTTGAAGGAAGTTAATTGAAGGGAAATATTGTGTATTTGGGACAAATAATATTTTTTTCAAAAGCACCAAGGCCATTTTACAAAAGAGAGGTAGTCACTTAAGATCCCAGATTTCACTGACTGTGACATTTATGTTCCTAAGTCAGTAAGATGCTTTAGAGACTTTGTAGCCTCTGCCCCATGTTGGTTCATGAGAGGTATGGGCTGTCAGAGATTGATTACGGTGACCTTTTCTTTTTCTTTTTTTTTTTTTTTTTGCTTGTTTTGGATTCTCTGAAAG
Seq C2 exon
GGTGAAGCTGAGTTTGCTAGAATCATGTCCTTGGTTGACCCCAATGGACAAGGAACCGTCACTTTCCAGTCCTTCATTGACTTCATGACCAGAGAAACAGCAGATACGGACACGGCTGAGCAAGTGATAGCTTCCTTCAGAATCCTGGCTTCAGATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014463:ENSGALT00000023354:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.074 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138331=EF-hand_8=PU(37.7=90.9)
A:
NA
C2:
PF138331=EF-hand_8=PD(58.5=58.5),PF087265=EFhand_Ca_insen=PU(26.9=34.0)
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:
AGGAAGAACGGACTGATGGAC
R:
ATCTGAAGCCAGGATTCTGAAGG
Band lengths:
222-1164
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]