RnoEX0042391 @ rn6
Exon Skipping
Gene
ENSRNOG00000001578 | Hoxd4
Description
homeo box D4 [Source:RGD Symbol;Acc:1309690]
Coordinates
chr3:61634005-61644596:+
Coord C1 exon
chr3:61634005-61634399
Coord A exon
chr3:61643998-61644141
Coord C2 exon
chr3:61644519-61644596
Length
144 bp
Sequences
Splice sites
3' ss Seq
TAATTCCCACCATAAATTAGGTT
3' ss Score
3.37
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
Exon sequences
Seq C1 exon
CATTCTGCTTTCCCAGAGCCTCACCCCCTCTTTTTCTAACCTTTGTCTCTGCAGAGGTGGGCTCTAGTCGCCGGCTGCGGGATCGCGTGGTCCGCAGCGGCCTGGGCTCCCGCCGCGACTCCACGGCACCTCGCCCCGGGTCGCGATCAGGGCCGCCTCCGGAGTCGGCGGGGAGCCCGGAAGGAGCCCCGGGCGCCGAGCCACCCGCAGCCGCTCACACTCCTGCGGAGAGCCGACCGCCTGCTTCCACAAGGCGACCCGGGCCGCGCACTTCCCACCGGACCCCTTCAGCAACATGAGCCCAAACCTGCGGCCGACGGTAAGCGCAGCCCCGCAGCGCCGGATGGATCCCAGCGGTGGCCCGGGCCGACCGACCGCAGCTCCGCACCCTCCGG
Seq A exon
GTTAAGAGCATACAAGTGCAGATGCTTGGTTCCTGTCGCTGCGATAGGAAAGTAAGAGGCTCCAGCCAGCGCCCGCCCGCCCGCCCGCCAGGCTCAGGAGACAGCTCTTCTCTTAGCTGTCCTACCCTCTGGAAAAGAAGAACA
Seq C2 exon
GGGACTAAAAACTTGAAGCTGGACATGAGCGCCTGAGGAAACCACCATTCTGTGATCCGTCTGTAGGTTCTCCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001578_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCCGCTCACACTCCTG
R:
GACGGATCACAGAATGGTGGT
Band lengths:
249-393
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]