GgaINT0047049 @ galGal3
Intron Retention
Gene
ENSGALG00000009172 | E1BQU1_CHICK
Description
NA
Coordinates
chr7:16557432-16557839:-
Coord C1 exon
chr7:16557726-16557839
Coord A exon
chr7:16557597-16557725
Coord C2 exon
chr7:16557432-16557596
Length
129 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
3' ss Seq
GACAATGAGTTACTTTGCAGGTG
3' ss Score
3.97
Exon sequences
Seq C1 exon
ATACAGAAGGGCAAAGTGCATGGGAGCATTGATGTGGGCTTATCAGTTATGTCCATTAAAAAGAAGGCTCGCAGAATAGATCTTGATACAGAAGAACACATTTATCATCTGAAG
Seq A exon
GTAAAAAGCGGTGCAAGTGTGTATTCTCTTTTCATCCACAGTGGAAATACATAATAGTAATTAGAAAAGATCTGCTGTGGGAGAAGGAGTATTATTTTAAATGCTTGTTGACAATGAGTTACTTTGCAG
Seq C2 exon
GTGAAGTCCCAGGATACATTCGATGCGTGGGTTTCAAAATTACGCCACCACCGGTTGTACCGTCAGAATGAGATTGTGAGATCTCCAAGAGATGCTAGCTTCCATATATTCCCCTCAGCCTCTACTACAGAGTCTTCACCAGCTGCTAATGTACCAGATGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009172:ENSGALT00000014942:7
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=0.236
Domain overlap (PFAM):
C1:
PF154091=PH_8=FE(41.1=100)
A:
NA
C2:
PF154091=PH_8=PD(18.9=30.9)
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:
TGCATGGGAGCATTGATGTGG
R:
AGCAGCTGGTGAAGACTCTGT
Band lengths:
245-374
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]