GgaALTD0007159-1/2 @ galGal3
Alternative 5'ss
Gene
ENSGALG00000024340 | F1NED2_CHICK
Description
NA
Coordinates
chr16:345766-346302:+
Coord C1 exon
chr16:345766-345866
Coord A exon
NA
Coord C2 exon
chr16:346042-346302
Length
0 bp
Sequences
Splice sites
5' ss Seq
GAGGCGGTG
5' ss Score
-9
3' ss Seq
GACGCCGTCTGTCCCCGCAGGGT
3' ss Score
11.79
Exon sequences
Seq C1 exon
TCACGGACTCCATTGGCGGGGAGAGGCGGAGGCACCAATAAGGACGCGGGGCGGAGCCCGGGGTATTCGCGGAGCGGAGCGATGCGATGGGTCCGAGCGAG
Seq A exon
NA
Seq C2 exon
GGTCGCACTCCCTGCACTACTTCCTGACCGGGATGACGGATCCCGGCCCCGGGATGCCGCAGTTCGTGATCGTCGGGTGCGTAGATGGCGAACTCCTCTGGAACTACAGCAGCCTGGGCCGGACGGTGCGGCCCATCATGGGCTGGCTGCCGCAAGAGGACCAGGAGCACTGGGATGCAGAGACCAAGAAGGCCCGGGACGTTGAGCTGGATTTCTACGAGTTCCTGGGCAGGCTGCAGGTGCACTACAATAAAAGTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000024340-0-0,1-0-1/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence exclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.023
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(0.1=0.0)
A:
NA
C2:
PF0012913=MHC_I=PU(49.4=98.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGGCACCAATAAGGACGC
R:
GATCACGAACTGCGGCATCC
Band lengths:
145-194
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]