DreALTD0013567-2/2 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000070818 | pax7b
Description
paired box 7b [Source:ZFIN;Acc:ZDB-GENE-080917-54]
Coordinates
chr23:20938266-20938822:+
Coord C1 exon
chr23:20938266-20938392
Coord A exon
chr23:20938393-20938407
Coord C2 exon
chr23:20938694-20938822
Length
15 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGC
5' ss Score
8.69
3' ss Seq
CCTTTTTATTATCCCATCAGTAA
3' ss Score
5.71
Exon sequences
Seq C1 exon
GTGGCAACACCTGACGTGGAAAAACGAATTGAGGAATACAAGCGCGAAAATCCCGGCATGTTTAGTTGGGAGATCCGAGACAAACTGTTGAAGGACGGGGTGTGTGACAGAAGTACAGTTCCCTCAG
Seq A exon
GTGAGGCCTCATCTG
Seq C2 exon
TAAGTTCTATCAGCCGGGTTCTTCGTGCGCGTTTCGGCAAAAAAGACGACGAGGATGATTGTGACAAAAAAGATGACACTGGAGAGAAAAAAACGAAACACAGTATTGACGGCATTCTGGGAGACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000070818-5-3,6-3-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (disopred):
C1=0.000 A=NA C2=0.932
Domain overlap (PFAM):
C1:
PF0029213=PAX=FE(36.6=100)
A:
NA
C2:
PF0029213=PAX=PD(6.1=18.2)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
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:
CCCGGCATGTTTAGTTGGGAG
R:
ACGAAGAACCCGGCTGATAGA
Band lengths:
102-117
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]