GgaINT0057652 @ galGal4
Intron Retention
Gene
ENSGALG00000009474 | ACTN1
Description
alpha-actinin-1 [Source:RefSeq peptide;Acc:NP_989458]
Coordinates
chr5:27568927-27571230:+
Coord C1 exon
chr5:27568927-27569007
Coord A exon
chr5:27569008-27571071
Coord C2 exon
chr5:27571072-27571230
Length
2064 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
ATGACTCTCTTGTTCTCCAGGGA
3' ss Score
10.02
Exon sequences
Seq C1 exon
GACCACTCCGGCACACTTGGCCCTGAGGAATTCAAAGCCTGTCTCATCAGCTTGGGTTACGATATTGGAAACGATGCACAG
Seq A exon
GTACTGAATGCTAGTGGTGAACACACACAGATATTAAGCTATGAAAAAATAACGTTTTTTTTCCCCTTTCTTTTCTTGTTTGTCTTAATGTATTTGTCACTGCTGTTCTTGTGTTTGACTATATATGCATCACTTTTCTGTTCTACTTTACCTCTAAATGTACCTTGGTATCTATCCCTTCTTAATTCTGTAATGGTTTGTCTTGTGGGAATTCCTTTTATGTCTTTAAACTATTCCATTTACTTCTGTGTCACTTAACACTCCTTCTCTTGTCCATCTCTCACTATGTCTTGCTTAATATCTTCTGCTTTTTCATCATTGTTTTCCATGTGTGCTAACTATCCTGTGTCCAAAACAACTTTTACATCATGGTTTCACAAACTACCTTTGCTACGTTGTTTTTCATTGTCCTGTAAATACTTTTTTCCACCTCCTCCTCCTTAAAACTCATTCTCTGTCATGTCTCATGTGGGTTCATTTCTCTCTGGACTGGTCTTCCTTTTCTCTCTTGGCTGTTTCCATCTTTGCATCATTCTCTGTAGAAGAAGACTGGTATGATGGATTGTGAAGATTTCCGAGCCTGCCTTATCTCCATGGGTTACAATATGGTAATGTAGAGCCCTCTATCACTTCTGTTCAAAGTGATTCTTATAGCCACCTTCAGAAAGAAAGGGAGAATGTGTAGTGAGTGAGTCAAGGTAAATACGATCTTATTTTCCAGCAATTGAAGTTCAATCCAGTACATGTAAAATTGTCCTGCAGCAGTAGCTGCAGATTAAAAAAAAAAGATATCATTGTCTTCATTCTTTGTATTTCAAATAAGAGTTATATTTATCAAACTGTGCAGCAACAAGTGGAAGAAACAATGAACTTTCTTATAGTGGTGCATATGCTCTACATAGTGGCACATAAGTTCCCCAGACCTAAGCATCAATTGAACTCTTCTGGAAGCCTGATTTCTGAATACATTCAAAGTTGCTCCTCACATTCCTGCCATTTATTTCACATCTCTTTGTTCATGTAAGTAGGTTAAAGTTCCAGTCATCCTCCCTGTAGCTTTTCCCTCACCAAAGCACTTGCACATTCGTGTGGCACCTTGAGAATCACCGTAACTAATGCAGAGTTTCCCCAAAGACTGACATTCATCAAAGGGCAGGAGAAGACCACAGTGCAAAAATGTTGAGCTCTACTCTCAGTATCTTTGCTCCCAATGTCAAGCAAAGCAGTGTTTGTTTGTCTTCATTATCAACCCAGTGTAAACACAGACACTTTTTGATGCTGTGTGCCAATCTGCAGTAACATTTGATGAGATACTTCAATTAATCTGGAAGGTATACTGATCTAGAGGTGTTAGAAAAGCATATACCCAGGAGGATACTCAGCTCTGCTTTCCTCTCCTCCTTACCTGGGGAGAAAGGAATCCCCACAGATGAGAATAGATAATATTTTGTTTATATAAAGAAGACAAACAAAAAAATAAAAACCTACAGAAAACCAGAAAACTCACAACACAGTTTTGCCTTCTGTAGTAAACTTATATGTAGAACCCTTCCTGTAAAAGCTACTTCCCTGATGTAGAAGTCCTTTTCTCTAAAGCCTATCTAGTTAGAATAACCAGATAACATTCAAGGCCCCAGAGAGGTTTCTGCTGGTGGATTCTGTTCTAGCAGCAGAAGAGAACCATGAAAGTTTAGGAAATAAAAGGATGTAACGAATGCAGATCTTCCAGTATTGCTACAGACATCTAGCACAACATCTATGACAGAGAAAGCTGCATCTTCCCCTCAAGTCTGTACGATATTGTTCCCTAGATTATCCTAGAGCTAGCTGGAGTTGGATGCTATCTTAGGCCACAACTGAGAATATTTTATTCCAAAGGACAAATGAGTAGGAAGCATTTGCACACAGCAGCCAGATAAAAAAGAGTATTTTAATGAAAGGTTGAAGTTGTTTCTGTTTGACTTTGCTTTCCCAGCTGTGAGATGTGCTGCTGAACATTTTCTCCTCGCTTTCATGGCACTGCTGCCCAAGTGTCCAGGCTTACATGACTCTCTTGTTCTCCAG
Seq C2 exon
GGAGAGGCAGAGTTTGCCCGCATCATGAGCATTGTCGATCCTAATCGCATGGGTGTAGTGACGTTCCAGGCCTTCATTGACTTCATGTCCCGGGAAACAGCAGATACAGATACTGCTGACCAGGTTATGGCTTCTTTCAAGATCCTGGCTGGAGATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009474:ENSGALT00000038021:20
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:
PF134991=EF-hand_7=FE(30.6=100)
A:
NA
C2:
PF134991=EF-hand_7=PD(32.9=52.8),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:
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]