GgaALTD0006647-2/3 @ galGal3
Alternative 5'ss
Gene
ENSGALG00000017094 | F1P2M4_CHICK
Description
NA
Coordinates
chr1:180355062-180355507:+
Coord C1 exon
chr1:180355062-180355203
Coord A exon
chr1:180355204-180355207
Coord C2 exon
chr1:180355439-180355507
Length
4 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGT
5' ss Score
6.84
3' ss Seq
CACTCTCCCACTCCCGGCAGGTG
3' ss Score
11.25
Exon sequences
Seq C1 exon
TCAAAACCAGGACGAAGGACAAATACCGCGTGGTGTACACGGACCACCAGCGGTTGGAGCTGGAGAAGGAGTTCCACTACAGCCGCTATATCACCATCCGGAGGAAAGCTGAGCTGGCCTCCAGCCTGGGGCTGTCGGAGAG
Seq A exon
GCAG
Seq C2 exon
GTGAAAATCTGGTTCCAGAACCGTCGGGCGAAGGAGAGGAAGATCAACAAGAAGAAGCTGCAGCAGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000017094-1-1,2-1,3-1-2/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.265 A=NA C2=0.652
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(73.7=85.7)
A:
NA
C2:
PF0004624=Homeobox=PD(22.8=56.5)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCGCTATATCACCATCCGGA
R:
TGATCTTCCTCTCCTTCGCCC
Band lengths:
107-111
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]