DreEX0038062 @ danRer10
Exon Skipping
Gene
ENSDARG00000029263 | hoxb3a
Description
homeobox B3a [Source:ZFIN;Acc:ZDB-GENE-990415-104]
Coordinates
chr3:23609593-23618858:+
Coord C1 exon
chr3:23609593-23609659
Coord A exon
chr3:23615479-23616079
Coord C2 exon
chr3:23616752-23618858
Length
601 bp
Sequences
Splice sites
3' ss Seq
TGCCTCTTATAACCTTTCAGGTC
3' ss Score
10.3
5' ss Seq
ATGGTGTGT
5' ss Score
4.84
Exon sequences
Seq C1 exon
TTCCTTCTCGTTATCAAGAAGCTGTATCCTTGCATAAAATCTAGAAGTGATAAAGGACAATATCTCG
Seq A exon
GTCAGCTTCCAAGAGGCCATTGGAAAGAGACCGTCACGTGACAACTGGTGCCAATGTTCTTCCAGAAGGTCGTCAGGACCCTGGTAGCCAGCAACTCGATTTTTGGAAATGCAGAAAACGACCTACTACGACAACTCGACACTTTTCGGAGGATACTCGTATCAGGGGGCAAACGGTTTTGGCTATGATGCCCCGGCACCAGCCTTCCAGAACTCAGCACATCTTGAGGGTGACTACCAAAGGTCTGCATGCTCCCTACAGTCGCTCGGCACCAGTGCACCCCCACAGCCTCAGCATGCCAAGACGAAAGAGCTTAATGGCAGCTGCATGCGGCCCAGTCTGCCACCTGAACACCATCCACCCCCCCAGGTTTCCCCTCCTCAGAACACTGTAAATGTTGCTGCCACGAATGCCACCCAGCAGCCAGGTGGCAGTGGTGGTGGTGGGGGGGCTGGCTCTGGGGGAACATCCAAATCATCATCCAAGTCATCCTCTATGGCCACAAACCCAACTCTCACGAAGCAAATCTTTCCTTGGATGAAGGAGTCACGTCAGAACACCAAGCAAAAAAACAGCTCCCCTAGTGCAAGCTCAGCTAATG
Seq C2 exon
CGGAGAGCAGCGGTGGTGAGAAAAGCCCTCCGGGTTCTGCAGCTTCCAAGAGAGCACGCACCGCTTACACCAGCGCACAGCTGGTGGAGCTCGAGAAGGAGTTTCACTTCAACCGATACCTGTGCCGGCCGAGGCGTGTGGAAATGGCCAATCTGCTAAACCTCAGTGAGCGGCAGATCAAGATTTGGTTCCAGAACAGGCGGATGAAGTACAAGAAAGATCAAAAGTCAAAAGGCATTGGTTCATCATCAGGGGGGCCTTCTCCTACAGGAAGTCCACCTCTTCCAATGCAGTCCTCAGCTGGTTTTATGAACTCTATGCACTCAATGGGCAGTTACGATGCTCCCTCTCCACCATCTTTTAACAAACCCCATCAAAATGCATACGCCATGTCAACAGCCTATCAGAACCCAATGAAAGGTTGCCCACCCCAACAGAAGTATGGAAACACACCACCGGATTATGACCCACACGGGCTACAGGGTAACAGTGGCAACTAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000029263-'20-12,'20-11,27-12
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion (Ref, Alt. ATG (<=10 exons))
No structure available
Features
Disorder rate (Iupred):
C1=NA A=0.873 C2=0.838
Domain overlap (PFAM):
C1:
NA
A:
NO
C2:
PF0004624=Homeobox=WD(100=22.4),PF132931=DUF4074=WD(100=25.2)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAAGAAGCTGTATCCTTGCA
R:
GGACTGCATTGGAAGAGGTGG
Band lengths:
350-951
Functional annotations
There are 1 annotated functions for this event
PMID: 8600458
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: not specified. ELM ID: ELMI000757; ELM sequence: FPWM; Overlap: FULL
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]