DreEX6002379 @ danRer10
Exon Skipping
Gene
ENSDARG00000021336 | pax4
Description
paired box 4 [Source:ZFIN;Acc:ZDB-GENE-041210-244]
Coordinates
chr4:19712479-19714882:+
Coord C1 exon
chr4:19712479-19712560
Coord A exon
chr4:19714600-19714713
Coord C2 exon
chr4:19714800-19714882
Length
114 bp
Sequences
Splice sites
3' ss Seq
TTCACTTCCTGTCACTCAAGAAC
3' ss Score
3.43
5' ss Seq
AAGGTGATT
5' ss Score
5.88
Exon sequences
Seq C1 exon
GTGTCTTCCATTAACCGGATACTCAAGAAGATCCATCAAGATGAGGACATTGCATATCCAAACGAAAAACACTATCACACAG
Seq A exon
AACAACTGAATGTACAGAGCCATTTTCAGCAACAAATGAACACAAACTTGCCAAGAACTGCTCATCGAAGCAGAACCGCATTCACAGCAGATCAGAGCGGGAGATTAGAGAAAG
Seq C2 exon
AGTTTACCTGTGGGCTTTATCCAGATCTGCTGACCAGAGAAAAGCTCGCAGAGGAGACAAACCTTTCACAGGACACTATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000021336-'2-3,'2-2,3-3=AN
Average complexity
A_S
Mappability confidence:
86%=100=75%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (disopred):
C1=0.607 A=1.000 C2=0.964
Domain overlap (PFAM):
C1:
PF0029213=PAX=PD(6.5=28.6)
A:
PF0004624=Homeobox=PU(29.8=43.6)
C2:
PF0004624=Homeobox=FE(47.4=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTCTTCCATTAACCGGATACTCA
R:
CCTGTGAAAGGTTTGTCTCCTCT
Band lengths:
154-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]