GgaEX0001422 @ galGal4
Exon Skipping
Gene
ENSGALG00000001276 | HOXB9
Description
homeobox B9 [Source:HGNC Symbol;Acc:HGNC:5120]
Coordinates
chr27:3568746-3572701:+
Coord C1 exon
chr27:3568746-3569253
Coord A exon
chr27:3569472-3569549
Coord C2 exon
chr27:3572505-3572701
Length
78 bp
Sequences
Splice sites
3' ss Seq
GTCGTCTCCGACCAAAACAGAGT
3' ss Score
3.73
5' ss Seq
GCTGTAAGC
5' ss Score
4.47
Exon sequences
Seq C1 exon
TTCTGGGACTCTTAGCAATTACTATGTCGACTCTATTATAAGTCATGAAAGTGAAGACTCGCCTTCAGCTAAATTTTCATCTGGGCAATATACAAGTTCCAGGCAAGCTGGGCACAATGAACATCTAGAATTCCCCTCTTGTAGTTTTCAGCCAAAACCTCCAGTTTTCAGCGCCTCCTGGACTCCTTTGAATCCACATTCTTCTGGTACCCTTCCTGCCGTCTACCATCCATATATTCAACATCAAAGCGTCCCATCTGATAGCAGGTATCTACGGAGCTGGCTGGATCCAGTGCCCAGAGCAGAGACCCTCCCCGGGCAGGGATCTGTTAAGGCAGAGCCGCTGCTGGGCCGTCCCGGGGATGTCCATAAACAGGGAACACAGGAGTACAATTTAGAAACTTCTGCTGCAAGGGAAGGGATCGTTTCCAATCAAAGGCCCAGCTTCGAGGACAATAAAGTTTGTGAAGGAAGCGAAGACAAAGACAGAACAGATCAAA
Seq A exon
AGTCCAGAGCGGACAAAAGCTGGATCGAGCCGTCCTCTTTCCTACAGAGCGCTGACTCCGGCAGCGGAGATCATTGCT
Seq C2 exon
CCAACCCAGCTGCCAGCTGGCTGCACGCCCGCTCCTCCAGGAAAAAGCGATGCCCTTACACGAAATACCAGACCCTGGAACTAGAGAAGGAGTTTTTATTCAATATGTACCTGACGAGGGACCGTAGACACGAAGTGGCCAGACTCCTCAACCTGAGTGAGAGACAAGTCAAAATCTGGTTTCAGAACCGAAGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001276_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
Show structural model
Features
Disorder rate (Iupred):
C1=0.688 A=0.852 C2=0.393
Domain overlap (PFAM):
C1:
PF046178=Hox9_act=WD(100=99.4)
A:
NO
C2:
NO
Main Inclusion Isoform:
ENSGALT00000001947fB147
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:
AACTTCTGCTGCAAGGGAAGG
R:
ATTTCGTGTAAGGGCATCGCT
Band lengths:
167-245
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]