GgaINT0125660 @ galGal3
Intron Retention
Gene
ENSGALG00000009058 | F1NGR8_CHICK
Description
NA
Coordinates
chr17:789808-790285:+
Coord C1 exon
chr17:789808-789967
Coord A exon
chr17:789968-790057
Coord C2 exon
chr17:790058-790285
Length
90 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGC
5' ss Score
7.93
3' ss Seq
ACCGCTGTCTCCTTGCCTAGCGT
3' ss Score
8.5
Exon sequences
Seq C1 exon
AATTGCAGACCCACCGTCCTCAGACGCTGTCCTCAGTGCAGTGATGGCCACACTGAAGTCGTACCCCTTTGATTTCCGGGGAGCAAAGATCCTGTCAGGGGAAGAGGAGGGGGTGTTTGGCTGGATCACGGCAAACTACCTCCTGGAGAACTTCATCAAG
Seq A exon
GTGGGCAGGGGCACGCAGCGGGGCCGGCGGGGCAGCCAGGCTGTCCTGCAGCTCACCACGTCCCACACCCACCGCTGTCTCCTTGCCTAG
Seq C2 exon
CGTGGTTGGCTCGGAGAATGGATCCAATCCAAGAAGAAGACCCTGGGGGCCATGGACTTTGGAGGCGCTTCCACACAGATCACTTTTGAAACCAGTGATGCCATTGAAGATCCCAAAAATGAGGTGATGCTGAAGCTGTACGGCCAGCCATACAAGGTGTACACCCATAGCTTCCTCTGCTACGGAAGGGACCAGGTCCTCAAGAGGCTGCTCTCAAAGGTCCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009058:ENSGALT00000014744:4
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=0.013
Domain overlap (PFAM):
C1:
PF0115012=GDA1_CD39=FE(12.2=100)
A:
NA
C2:
PF0115012=GDA1_CD39=FE(17.3=100)
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:
CCTTTGATTTCCGGGGAGCAA
R:
AAGTGATCTGTGTGGAAGCGC
Band lengths:
180-270
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]