RnoALTA0028142-2/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000018739 | Pax7
Description
paired box 7 [Source:RGD Symbol;Acc:1564360]
Coordinates
chr5:158309128-158310155:-
Coord C1 exon
chr5:158310026-158310155
Coord A exon
chr5:158309257-158309262
Coord C2 exon
chr5:158309128-158309256
Length
6 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TTTTGCCTTTAATTTCTGAGGTT
3' ss Score
2.71
Exon sequences
Seq C1 exon
CAGGTGGCGACTCCGGATGTGGAGAAAAAGATTGAGGAGTATAAGAGGGAGAACCCCGGAATGTTCAGCTGGGAAATCCGGGACCGGCTGCTGAAGGACGGCCACTGTGACCGCAGCACGGTGCCCTCAG
Seq A exon
GTTTAG
Seq C2 exon
TGAGTTCGATTAGCCGAGTGCTCAGAATCAAGTTCGGGAAGAAAGAGGACGATGAGGAAGGAGACAAAAAGGAAGAAGATGGCGAGAAGAAAGCCAAACACAGCATCGATGGCATCCTGGGCGACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018739-2-4,2-3-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (disopred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
PF0029213=PAX=FE(34.1=100)
A:
NA
C2:
PF0029213=PAX=PD(6.3=18.2)
Main Inclusion 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:
CCGGAATGTTCAGCTGGGAAA
R:
ACTTGATTCTGAGCACTCGGC
Band lengths:
108-114
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]