GgaALTA0000338-3/3 @ galGal3
Alternative 3'ss
Gene
ENSGALG00000000847 | GARNL3
Description
NA
Coordinates
chr17:11171041-11172494:+
Coord C1 exon
chr17:11171041-11171176
Coord A exon
chr17:11172279-11172324
Coord C2 exon
chr17:11172325-11172494
Length
46 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATA
5' ss Score
8.49
3' ss Seq
CATTCTTTTTTTCCTTTGAGTTT
3' ss Score
-0.29
Exon sequences
Seq C1 exon
TCGGATATTTATTTTAAAGCTACTGCTGCAGTAAGTGGATCATCTCATAGCAGTTCTAAGGAAATGAGTTCAAGGAGTTCACCTCAAACACCTACAGCTTATGACATGCTGGAATGTTCTCTTTCTTCTTCAGAAG
Seq A exon
TTTCAGGTGAAGTTGCATGTAAAAACTTGTATAAAATTCCTCTTAG
Seq C2 exon
TAATCTGGTTGGGCGAAGCATTGAACGACCTCTGAAGTCACCTTTGACTCCTAAAGTAGTCACTACTCCAACATCCAGTGGCATTACCTCTCTTCCTGTTACTCACTCACTATCCTTATCTCGCATGGAAATTAAAGAAATTGCAAACAGAACGCGTAAAGAATTGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000847-37-40,37-39,37-38-3/3
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=0.264 A=NA C2=0.107
Domain overlap (PFAM):
C1:
PF0078017=CNH=PD(0.1=0.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
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:
GCTACTGCTGCAGTAAGTGGA
R:
AATGCTTCGCCCAACCAGATT
Band lengths:
140-186
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]