GgaALTA0004876-1/2 @ galGal4
Alternative 3'ss
Gene
ENSGALG00000009273 | HOXD11
Description
Homeobox protein Hox-D11 [Source:UniProtKB/Swiss-Prot;Acc:P24342]
Coordinates
chr7:15814228-15815924:-
Coord C1 exon
chr7:15814935-15815924
Coord A exon
NA
Coord C2 exon
chr7:15814228-15814328
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
TCTCTCTTTAATTTCAGCAGTTC
3' ss Score
5
Exon sequences
Seq C1 exon
GCAATCGTCTTCCTGTCAAATGACTTTTCCTTATTCTTCTAATTTACCTCATGTCCAACCTGTGCGCGAAGTGGCATTCAGGGAATACGGATTAGAGCGCGGCAAATGGCAGTACAGGGGCAGTTACGCTCCCTATTACTCAGCTGAAGAGGTGATGCACAGAGACTTTCTGCAGCCCGCGAACAGGAGGACGGAAATGCTATTCAAAACGGACCCCGTGTGCGGCCACCACGGAGCGTCCCCCGCCGCCTCCAACTTCTACGGCTCGGTGGGGAGGAACGGCATCCTGCCGCAGGGCTTCGACCAGTTCTACGAGCCGGCCCCCGCGCCCCCGTACCAGCAGCACTCCGAGGGCGAGGGGGACGCGGACAAGGGCGAGCTGAAGCCCCAGCACAGCGCCTGCAGCAAGGCACCTTCCGGCCAGGAGAAGAAAGTGACAACGGCGAGCGGCGCCGCTTCCCCTCCCGGTGAGGCTGTTGCAGAGAAGAGCAACAGTTCAG
Seq A exon
NA
Seq C2 exon
TTCCTCAGCGATCGAGGAAAAAGAGGTGTCCCTATACCAAATATCAGATAAGAGAACTGGAACGTGAGTTTTTCTTCAACGTGTACATAAACAAAGAGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009273-0-1,0-0-1/2
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=0.365 A=NA C2=0.192
Domain overlap (PFAM):
C1:
PF120453=DUF3528=WD(100=70.9)
A:
NA
C2:
PF0004624=Homeobox=WD(100=72.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
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:
CGGCCAGGAGAAGAAAGTGAC
R:
TTTTCCTCGATCGCTGAGGAA
Band lengths:
104-107
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]