GgaINT0111615 @ galGal3
Intron Retention
Description
NA
Coordinates
chr1:121647172-121647663:-
Coord C1 exon
chr1:121647514-121647663
Coord A exon
chr1:121647316-121647513
Coord C2 exon
chr1:121647172-121647315
Length
198 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAAA
5' ss Score
6.02
3' ss Seq
GTCCTGGTCTTCCTAATTAGGGG
3' ss Score
7.88
Exon sequences
Seq C1 exon
TGGATGATGCTGGTAAGATAGAACATGAAGGTTCTGCTGAAATTACCATGGAAGCAGAGTCAGAAAGTGGATCTTGTAAAGTGGATGGCATTTGTCCAGAAGTCATCAAGGTCTATATATTCAAAGCAGACCCTGGAGAAGATGATTTAG
Seq A exon
GTAAAACATGCTCATTTTAGAATACTCCAACCTGACATGTGAAATTTTGCATAATTAGAGACGATGGTTTCTCTTAAGTCAGCTGTAAGGAGCTGTGGGTCTAAATGTGAAAGAGTTGCAAACTTTCAGTTTTCTGCAGTTCAGAATAGAATATGAACAAAATGTATTAAAATATTTTGTCCTGGTCTTCCTAATTAG
Seq C2 exon
GGGGCACAGTAGACGTTGTGGAGAGCGAGCCAGAAAATGATCATGCAGTTGGCTTACTTGATCAAAATAGCAGTATTCGTATTCCAAGGGAGAAAATGGTTTACATGACCGTAAATGATTCTCAGCACGAAGACGAAGATTTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016327:ENSGALT00000026338:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.373 A=NA C2=0.755
Domain overlap (PFAM):
C1:
PF047048=Zfx_Zfy_act=FE(15.2=100)
A:
NA
C2:
PF047048=Zfx_Zfy_act=FE(14.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCATGGAAGCAGAGTCAGAA
R:
TCGTCTTCGTGCTGAGAATCA
Band lengths:
242-440
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]