GgaALTD0007159-2/2 @ galGal3
Alternative 5'ss
Gene
ENSGALG00000024340 | F1NED2_CHICK
Description
NA
Coordinates
chr16:345766-346302:+
Coord C1 exon
chr16:345766-345866
Coord A exon
chr16:345867-345915
Coord C2 exon
chr16:346042-346302
Length
49 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
3' ss Seq
GACGCCGTCTGTCCCCGCAGGGT
3' ss Score
11.79
Exon sequences
Seq C1 exon
TCACGGACTCCATTGGCGGGGAGAGGCGGAGGCACCAATAAGGACGCGGGGCGGAGCCCGGGGTATTCGCGGAGCGGAGCGATGCGATGGGTCCGAGCGAG
Seq A exon
GCGGTGGTGCTGGGGCTGCTGCTGGGCAGCCTGGGCGCGGCGGTATGCG
Seq C2 exon
GGTCGCACTCCCTGCACTACTTCCTGACCGGGATGACGGATCCCGGCCCCGGGATGCCGCAGTTCGTGATCGTCGGGTGCGTAGATGGCGAACTCCTCTGGAACTACAGCAGCCTGGGCCGGACGGTGCGGCCCATCATGGGCTGGCTGCCGCAAGAGGACCAGGAGCACTGGGATGCAGAGACCAAGAAGGCCCGGGACGTTGAGCTGGATTTCTACGAGTTCCTGGGCAGGCTGCAGGTGCACTACAATAAAAGTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000024340-0-0,1-0-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
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 Skipping 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]