GgaINT0043431 @ galGal3
Intron Retention
Gene
ENSGALG00000007078 | F1P328_CHICK
Description
NA
Coordinates
chr6:23437687-23438302:+
Coord C1 exon
chr6:23437687-23437821
Coord A exon
chr6:23437822-23438184
Coord C2 exon
chr6:23438185-23438302
Length
363 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTA
5' ss Score
7.04
3' ss Seq
AGGATCTATTTTGTCCACAGTAT
3' ss Score
6.06
Exon sequences
Seq C1 exon
GTCACAGGTACCAAACCAAAGATGTCCACAACAAGGAAAATTCTACTCATACTAGGATTCCTCTCCACTTTGGCTGCAATTGCTTTAATTACTGTAGCAGTGACCCAAAACCAGCCACTTCCGAAGAATATCAAG
Seq A exon
GTATTACAAGCTGAGGCTTTAATAGGAAAACAAGCCAAGTGGAGTTTTAGGCATGCATGGTGCTCAAGGATGTGTTGCTGTCCCTGCTGGGTCTGGCTGATCTCCTTTTCCAGCTCCATGCATCTCAAGCAACCTGATCAAAACAGATACACCTTCACAGGAGACCATCCCCTAAGTAATCACTTATGATCTTTCTACTGCTCTCATTCCCTCTGATGAAAACTTAGAACAAAACACTGCTGGGGAGAGTAATGGTGTGGCATGTCCCCACAGTTGCCAGATTTGCTCTTCATTTCTGCTCATGCATATGCTGCATCCAACTCAGTGGCTCAGGTGTGATGACAGGATCTATTTTGTCCACAG
Seq C2 exon
TATGGGATTGTGCTAGATGCGGGGTCATCCCACACAAACCTGTACGTGTACGAGTGGCCAGCAGAGAAGGAGAATGACACTGGAGTGGTGCAGCAGGTGGAGGTGTGTAAAGTCGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007078:ENSGALT00000033272:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.089 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0115012=GDA1_CD39=PU(1.8=17.8)
A:
NA
C2:
PF0115012=GDA1_CD39=FE(13.7=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:
GTACCAAACCAAAGATGTCCACA
R:
CTTCGACTTTACACACCTCCACC
Band lengths:
246-609
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]