GgaINT0057647 @ galGal4
Intron Retention
Gene
ENSGALG00000009474 | ACTN1
Description
alpha-actinin-1 [Source:RefSeq peptide;Acc:NP_989458]
Coordinates
chr5:27561412-27563837:+
Coord C1 exon
chr5:27561412-27561552
Coord A exon
chr5:27561553-27563654
Coord C2 exon
chr5:27563655-27563837
Length
2102 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAC
5' ss Score
7.29
3' ss Seq
CTGCTGTCTTCCTTCCACAGGGA
3' ss Score
12.57
Exon sequences
Seq C1 exon
AGGACAGAGAAGCTACTGGAAACAATTGACCAGTTGTACCTGGAATATGCCAAACGAGCTGCCCCCTTCAATAACTGGATGGAAGGGGCCATGGAGGACCTGCAGGACACGTTCATTGTTCACACCATTGAGGAGATCCAG
Seq A exon
GTACACAGCAGTCATTTGCGCCAGCTGTGCTGGGATAGAGGGAAGTCAGAGGTCTCCTGAATTCCTAATGGTGCCAGATTTTTAGGTTGTGTTTTGATGGTGCTGCTCTAGAAAATGAGCCACAGCATAAACAACGAAAAGGATCATGCTTTTCCTTGATTACTTCCAAAAACCTGTATCTGAGCAGATAAGAGTCAAGTTCATACTATCCTAGCTGAGTACAAAGAACTGAAATTGGATTTCTCATTGTGACTCCAGTCTTACTAGTGGGAGCTGGAAAGCTGAGAGAATTTTTTCGTGTCTTGCATTTGTTAGGTTTTTTGTTTGGTTGATTTTTGTTTGTTTTTAATCAAAATGAACAAAACTTAGTGCTACCGTCAGGTTCTGTGGGTCAGCTGCCCCATGTAATGTTATATTCAGGTCACTTGGTCCTATGTAATGTGTCATGAGGGTAGCTGTTGAGCTGCCAGCTGGGTTTCAGTGCTGAGCAGAGGAAACATCAGGATTCTGCACTTTGTTAGTGGATTGCCATTTGAAACCAAAGATTTCTTGGCTCTTGCAAGACAACGGGGACTTCCTCTTCTGAAAGGGTGTAATGAAAGGAATTTGAAGCATCTACAGGTAATTTTCTGACCTTTGAGAGCAGGAATTATCCTTCTCTGGGTTCTAGAGGGGAGTCCATTTCTTCTGCTTGATGAGCTCCTGAAAAGAATCCTGGTATTCATTTGGATTTAGCTGGTTGAGATGAACAGCCAGGATATTCTTACAATCAGCAGTTGCTGCACTACTGCTGTAATTTCCTCCTGACATTGTGCTTTCTCAACCTGGTCAGTTTATCAAAACCTGATGAGTGTTTTGTAGGAATGGTTGACAGCAATATGGCCATCAGTGAGGCAGTGAGTGGGAAACCAGCAGGGGACACAAGGCAGTCAGGGAGACAGAAGCAGTAGTATAGCCCTAGCCTGGTTTGAGCACTGTTACTGTAGTGTTTCTGCATCCACCTCTCTCTCCTGAATAAAGAGGATCACTAGGTCTTTCATAATGCAAAGCAAATCTGAACAGAGCTTAAACATTTCCATCATCTCTTTGTGGCTGCAGAATATTCCCCAGGTCTCCCAGACTTGCATTACATTTCTACTGCCACTGCAGCAGCTGCAAAGTAATGAGTCACCATGTAAGGAAGCAATTTTACAAAAGTAGTTACAGTGTATGTGTTGTAAGAAAGTGGTCAGTTATGAGGTTTACTTTAATTCCCTCTTCTGTCCACAGTGTTCCTTCCGTGATCTCTACACGTGTTTCTCTGTCTCATATCTGTTTTGCTGCCTCTTCACCTGAGTTTGCTTCCCTACTCTTGATCTTTCAGACTTCTGAGATGAAGTATCTAAAAGGCCTGTAGAAGCAGTGGGAAGTGAGCCAGAACCAACTGGCTTGTCAGCTGTCCACAAGCTGCCAGCAAGCATGCCCCCACCTTCGGTCTTTGGATCACAGTCTGGGCACCACAGCCAGATGGGGAACAGAAAGAGCCTATTGTGTACAGGGAGAGGAGCGGTTTTCAGCAACAGGAGCTTATGTTGCCTGTGCAGGTTTTCTGTGGTCTGAAAGACCTTCATCTAGTTCTGACTTACACTGATCAGACTGGATCTGACTTTGTTATTCATCTGGAGTCATCTTTGTTGTAGAGCTAATACATATCTAGTGGGAGAAGAACTGTATGGTGCATTTAGGCTCATGAGATATGGCCACTTCGGAGTAATGCTAGCAGTTCAGTCTTCCCTAAGGGGACTAGCAGCCTGTCACACAGCAGTGTTGGAGAAACAGTTTCCCTTAAACTGTGAGCCAGAACTATTCCATCATGTTTTGGGATGCGATCTCTGTTTCTGGTCAATATGGAACAGAAACAAATAGAGGGGAAAGGAGACTTCATTTAACTACTGAAAACACCCTTTTTAATGATGCTGAGGGATACTGGAAATCTGTTAGAGTAGCCTGTTTTGTATCCTGGAAATGTGTAAGCTTTTGCAGTTACTTAAGCAGGGATGTATTTGGTCAAAGGGCTATTCAGTGACTAATGCTCTTTTTTTGCTGCTGTCTTCCTTCCACAG
Seq C2 exon
GGATTGACCACAGCCCACGAACAGTTCAAAGCCACTTTGCCAGATGCCGACAAGGAGCGACAGGCCATCCTGGGAATCCACAATGAAGTCTCAAAGATTGTCCAGACGTACCACGTCAACATGGCAGGAACGAACCCTTACACTACAATCACCCCACAGGAGATCAATGGCAAATGGGAACAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009474:ENSGALT00000038021:15
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=PD(0.1=0.0),PF0043516=Spectrin=PU(32.1=76.6)
A:
NA
C2:
PF0043516=Spectrin=FE(53.6=100)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]