DreALTD0014680-2/2 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000005382 | prdm9
Description
PR domain containing 9 [Source:ZFIN;Acc:ZDB-GENE-040426-1319]
Coordinates
chr12:9751155-9751595:-
Coord C1 exon
chr12:9751327-9751595
Coord A exon
chr12:9751324-9751326
Coord C2 exon
chr12:9751155-9751222
Length
3 bp
Sequences
Splice sites
5' ss Seq
GTAGTAAGT
5' ss Score
8.01
3' ss Seq
TATATATTTATTTTCTCCAGATT
3' ss Score
8.56
Exon sequences
Seq C1 exon
ATTGTGAGATGTGTCAACAACACTTCATAGATCAGTGTGAGACCCATGGTCCACCTTCGTTTACATGCGACTCTCCAGCGGCTTTGGGTACACCTCAAAGAGCTCTGCTAACACTGCCACAAGGCTTGGTTATTGGTCGATCAAGCATCTCTCATGCAGGACTTGGGGTTTTCAACCAGGGCCAAACTGTTCCTCTAGGGATGCATTTTGGGCCTTTTGACGGTGAAGAGATCAGTGAGGAAAAGGCACTGGATAGTGCCAACTCTTGG
Seq A exon
GTA
Seq C2 exon
ATTTGCAGAGGAAATAATCAGTATAGTTACATAGATGCAGAGAAAGACACTCACTCTAACTGGATGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000005382-7-4,8-4-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.022 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
ACGGTGAAGAGATCAGTGAGGA
R:
AGAGTGAGTGTCTTTCTCTGCA
Band lengths:
107-110
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]