DreEX0038075 @ danRer10
Exon Skipping
Gene
ENSDARG00000059280 | hoxd3a
Description
homeobox D3a [Source:ZFIN;Acc:ZDB-GENE-990415-120]
Coordinates
chr9:1940718-1959057:-
Coord C1 exon
chr9:1958545-1959057
Coord A exon
chr9:1948557-1949118
Coord C2 exon
chr9:1940718-1940780
Length
562 bp
Sequences
Splice sites
3' ss Seq
TGTGATTTTGTCCTTCACAGTGA
3' ss Score
9.53
5' ss Seq
GAGGTACAG
5' ss Score
6.62
Exon sequences
Seq C1 exon
AGCAGATGTCTGTGACTGTATTTTCTTTGCTGAGGAAGTGCAGCTGGCTCAGTCATTATGCGCAAAAAACTCGAGGCTTTGCGGCAGCCCAGATTCCTTTTTTTGTTACAAGACAATTTACAGCTTCGTAATAGATCTTTTTATGAGCCTATTTCGTCTGTCATTGGATGCCACTGGTCATGTGCAGCACGCAAACGTCTTCATGACCCCTTTTCCTGATTTCCCAAGCGATTTTTCCACTACATTCTGTGGCTAAAGCCTCCAAATACAAAATACACTGTGTGCTCATGTAATTTTCTATGTTAAAGATCGAGCAGACAAACTCGAGGCTTTGGTAACCTGCATTACCAATTGCGTGTGTTGTCAGATGCTAGCTTGATGTGTGCTACAAGAGCTAAACAGAGCAAGCATTACAGTACTGGACGACAGACTTTGAAGCACGCTTCATAATATTCAGCACCATCGCCGGAGGCAAACCATGGATTACACGGCTTTGTTTG
Seq A exon
TGAACCCGGATTACACAGGACCTGAACCCAAACGTTCTCGGACAGCCTACACAAGACAGCAGGTTCTCGAACTAGAGAAGGAGTTTCATTTTAACAGGTATCTAACAAGACGGCGTCGCATCGAGATCGCGCACACACTCTGTCTTTCTGAAAGACAGATTAAAATCTGGTTTCAGAACAGGAGAATGAAATGGAAAAAGGATCACAAACTACCAAACACGAAAGGAAGATCGGCATCAGTTGGAAATCAGCATGCACAACACGCTCAGAAGGACAGCCAGACAGAGATCACAACTTTATAAGTGGATATCTCTCCCTCCCTTCAGATGTACAGATGAACTGTATGTAATAGACAATGCTTAATTTGACATTGCATGGTAGAAAATCATGACATGTTGGGTCTAAGTGCCAAAAACTGAGAAGCTGAAGCACACACCATGACTTAATGCAGCGTAAAAGCTGCTTTGCGTTACAATTCCCAATATTTCAAATATTGTAACCCTTTGTATGAGAGGCAAAGAGGATATGAGGCATCGAATGATGGTTCACAAATCACCACGAG
Seq C2 exon
GTCGCCGTCAAAATTATGAGGATTGTTTGAGGAGAAAGAGAAGAGAGAAAACCACAGACTACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000059280_MULTIEX1-1/2=C1-2
Average complexity
S*
Mappability confidence:
100%=100=100%
Protein Impact
NA
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGGATGCCACTGGTCATGTG
R:
CCTCATAATTTTGACGGCGAC
Band lengths:
358-920
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]