GgaALTA0004874-2/2 @ galGal3
Alternative 3'ss
Gene
ENSGALG00000009270 | F1NZJ4_CHICK
Description
NA
Coordinates
chr7:17402706-17404435:-
Coord C1 exon
chr7:17404225-17404435
Coord A exon
chr7:17402807-17402809
Coord C2 exon
chr7:17402706-17402806
Length
3 bp
Sequences
Splice sites
5' ss Seq
AAGGTTGGA
5' ss Score
5.64
3' ss Seq
CGTGTTTTTGTTTCGAACAGCAG
3' ss Score
7.43
Exon sequences
Seq C1 exon
CCCTGCAGCGGGGTTACCTGTCACGGGGAGCCCGCTAAATTTTACGGATACGATAACTTACAGAGACAGCAGATTTTTACGACACAGCAAGAGGCCGAGCTGGTACAATATCCTGACTGTAAATCGTCCAGTGCTAATATTGGCGAGGAACCAGACCACTTAAATCAGAGCTCGTCTCCCGCTCAAATGTTTCCCTGGATGAGACCGCAAG
Seq A exon
CAG
Seq C2 exon
CGCCCGGGAGGAGGAGAGGGCGGCAGACGTACAGCCGCTTCCAGACGCTGGAGCTGGAGAAGGAGTTTCTCTTTAACCCCTATCTGACCAGGAAGAGACGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009270-5-8,5-7-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.466 A=NA C2=0.504
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=WD(100=91.7)
Associated events
Other assemblies
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:
CCGCTCAAATGTTTCCCTGGA
R:
AACTCCTTCTCCAGCTCCAGC
Band lengths:
100-103
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]