GgaINT0126704 @ galGal3
Intron Retention
Gene
ENSGALG00000008936 | F1NV60_CHICK
Description
NA
Coordinates
chr17:1320537-1321999:+
Coord C1 exon
chr17:1320537-1320770
Coord A exon
chr17:1320771-1321735
Coord C2 exon
chr17:1321736-1321999
Length
965 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATT
5' ss Score
8.83
3' ss Seq
AGCTCCTGCTCTCTCAACAGGAC
3' ss Score
11.33
Exon sequences
Seq C1 exon
TACTCCTTCACAGGCAAGTGGACCCACCCACCAGTAGAGAACGTTGTCGGAGCTCTGGACCTTGGTGGGGCTTCAACCCAGATCACATTTCTTCCTGGGACCACAACTGATGACAAGAACACAACAAGAGCCCTCCTCAGACTGTATGGGACCGACTATTCAGTTTACACCCACAGCTACCTCTGCTATGGAGAAAAGGAAGTCCTGAAGAGGCTCTTGGCATCTTTACACAAG
Seq A exon
GTAATTGCCTCCAGCCTTGTGCTTCTCTGCTGCAGACAAAGCCATGGTTTCACTGAGCTGGGCAGGCAGCACACTCTGAGTATCACAACCACGGGGCTGAGTGCTGTTGTGCAAGCACCAGTGAGGGTTGATACAGTAGGGCCTCCTCTGCAGGGACCACCCCAGGCATGTCCCAGCACTAGGGCAGGAACGAGCCAAGATGAAGTTGGACTGCTGGTGCCTGGTGGCAGGCTCTACTGGGACAGCACGTGCCCGGGGTCCCAGTCCTAGGGCCGTCTGGCCCACCAGCTCTCCATCCCTGTCCCAGTGGAGGGTCTGCATCAGCCCAGACTCACTCACAGGAGCTGGAAGGACCTGAGTATTGTGTGCCAGGAAGCTGGGGATAATGTAGGTTTAAGGGGAGGAATCTGAATAGTCTGGTCGTCAGGGGCAGATGCTGGGGAGTAGAGGAAGGTTCATTGCTGCTTAGGGGAGCCCTAATATCTGTAACATCTGGCTGTGGGGTGAGGGCTCAGTGCCTCATGGTTGGAACAAGAATGGGCAAAAGGTGATGTCCATTGCATGTTAGCAGAAAGAAATCAGCATCCACTTCATTTTTGATAAAGTGGTTTCTCAGTTTTGGCTGTGCTCCTGGCTCTGATGACACTATGATAGAAGAGTGGGAACAAAATGTATGCATGCCCAGCACAGAGCACTAACTCCCAATGCCCTGGACACACAGCTGTTGCTGTAGCTGATTGCTTACTGCAGCGTGGCTGTCCCTACAACTCTGTGCCTGCACCCCATAGTATGGTGTTGCACTGGTGCAGATGTAACCCCATGGGCAGTGGAGGCAGGGTGATGGCAGGGTGTCTGCATTCCTGTGCCTGGTTGTTTGAACAGACAGTGTCTGTGGGCTGCTTCTCTCCTTTCCGTCCTCAGCCCCAGTGCCAGGGTGATGCTAACAGCTCCTGCTCTCTCAACAG
Seq C2 exon
GACGGCTTGTATGTCCAGAATATATCACACCCCTGCTACCCCAAGGGATACCAGGAGAACATCACCATAGCAGAGATCTACGACAGTCCCTGTGTCCCCACCCCAAGCATGCTCAGCCCTGCACAGATCCTCACAGTAACAGGGACAGGGAACCCAGCGGCGTGCCGCACTGCCATCCTGAAGCTCTTCAACTTCACCTGTGGGGCCAACAGGACGTGTGGCTTCGACGGGGTCTATCAGCCGCCCGTGCGGGGACAGTTCTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008936:ENSGALT00000014522:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.038 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0115012=GDA1_CD39=FE(17.9=100)
A:
NA
C2:
PF0115012=GDA1_CD39=FE(20.2=100)
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:
GAGAACGTTGTCGGAGCTCTG
R:
CTGGGTTCCCTGTCCCTGTTA
Band lengths:
355-1320
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]