GgaINT0111575 @ galGal3
Intron Retention
Gene
ENSGALG00000017106 | ATP8A2
Description
NA
Coordinates
chr1:181067759-181068540:+
Coord C1 exon
chr1:181067759-181067858
Coord A exon
chr1:181067859-181068441
Coord C2 exon
chr1:181068442-181068540
Length
583 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAG
5' ss Score
8.73
3' ss Seq
CTTTTCCTTTCTGTTCACAGCAA
3' ss Score
10.63
Exon sequences
Seq C1 exon
CACAGCCAAGTACAGTGTGGTGACTTTTCTACCTCGATTCCTGTATGAGCAGATAAGAAAAGCTGCAAATGCGTTCTTCCTCTTCATTGCCTTACTGCAG
Seq A exon
GTATAGTTTTATTGTTTTACTTTCATTTATTAAATAACTGAATGTAGTTAAACTTATTTGAATGTTCATAGTCAACTGCAAAGAAATTCTCAAATGAATGTTAGGTAGGAACATTGATGAGATATGTACTTAATAATTGAAAGTAGAGGGTATTCGAGCTGTTTTTTCCAACATAATTCCTAAAATCAAGCTAGTTATATTCTCAATGTAGTAGTATCACAAAATATGGAACTACTGACCATACTGGGAAAAACGTGCATAGATTCTTGTGAATGTGCTGATTGTTTAAATAGTACTGATACTCACCCTGAGTCAGTGATATTCATCAATCGAATGCTTTTCTTGTTAAGAAGAAGTAAAATAAAAGGGATGTACAGCAACATAATCATATACATTCATAGCTGTCGCTTCTTCAAGTTGGTTGAGAGCTTAGTCTGGTGTGTCCACTGAACTTAAATGGTAATCAAGTACAAATCAGAATTTAAGCTCTCTTTTTCTGCTGGTAACTTTGCATAAAATGCTAAATTTGCTAGAAACTTATTTTAGAAATAAAATGAGCATCTCTTTTCCTTTCTGTTCACAG
Seq C2 exon
CAAATTCCAGATGTCTCTCCGACAGGAAGATATACCACCTTGGTGCCATTGCTATTTATTTTGACAGTTGCTGGCATCAAAGAAATCATAGAAGATTAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000017106:ENSGALT00000027641:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0012215=E1-E2_ATPase=PU(6.2=51.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGCCAAGTACAGTGTGGTG
R:
TCTATGATTTCTTTGATGCCAGCA
Band lengths:
191-774
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]