RnoINT0107679 @ rn6
Intron Retention
Gene
ENSRNOG00000013670 | Pax3
Description
paired box 3 [Source:RGD Symbol;Acc:620431]
Coordinates
chr9:84005183-84006312:-
Coord C1 exon
chr9:84006066-84006312
Coord A exon
chr9:84005576-84006065
Coord C2 exon
chr9:84005183-84005575
Length
490 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGC
5' ss Score
7.31
3' ss Seq
CTGCGTGTGTTTCCTTACAGGTG
3' ss Score
12.84
Exon sequences
Seq C1 exon
GTAATGGGACTTCTGACCAACCACGGTGGGGTACCGCACCAGCCTCAGACCGACTATGCTCTCTCCCCTCTCACTGGGGGCCTGGAACCCACGACCACGGTGTCAGCCAGCTGCAGTCAGAGATTGGAGCACATGAAGAATGTGGACAGTCTGCCCACATCTCAGCCCTACTGTCCCCCCACCTATAGTACCACAGGCTACAGCATGGACCCTGTCACGGGCTACCAGTATGGGCAGTATGGACAAA
Seq A exon
GTAAGCCGTGGACGTTCTAGGGGCTAGTTCCTCCTGGAAGGGAGAGAGATCGCCTCTTGTTTGAGAACGGGGAACTGGAGGCATGGTTAAGCCCTTCATCCCGGTATCAGTTTTGTGGCAAAGCCAGCTGATTGCTACAGCACTGGCTCCCTTGTGTAATCATTTGCTTAACTGATGTCAATAACATCTTGCAGTTATTAATTGCTGGGACGGAAAACCGGATTGTCAGTAGGTAAAACATGGAGGTTGGCCAAAATGAAATAACCTCTGGCATTAGAAACACATGTTCTTAATGAGGTCAGCGCCAGGATCATTTGGGGATAAGCCCAGGACACAGAGTTGTGTCAAACTTGTCTCAGGAATAAAAATATTAGTCTCGATCCTTTGATACCGTGGTATTAAATATGACATTGTCAGCCCGTAGCTGATCTTGCCCCTAACTGTGAATTGTCCCAGCATGACCTAAAAACCTGCGTGTGTTTCCTTACAG
Seq C2 exon
GTGCCTTTCATTATCTCAAGCCAGATATTGCATAAGTGAACTGTCCACATGGAGCCCTGTTTCCGGCCTCCACAGACTAGACATGAAGAATCTTCTCAGAAACAAAACATAACAAAACAATAATAATAAAAAAATAATAAATTTTAAAAAAATCAGCTTTTGGGGGAGGTGGAGACGAAAGAAAGCGATTGATTTTCTTTCTCCAGTAGTTGCTTTCAGACTCTTTGAACAAAAAACAGGGGAGGCAAGGAAGACCCAGAGCTATAAAACGCACCATTTTAAGACAGTGACGTAACCTGGCTACATATCAAAAATGTCCCCAACTCTTTGTTGCTGATCAAGAAGCTAAAACATTCCATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013670:ENSRNOT00000018652:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (disopred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTACAGCATGGACCCTGTCAC
R:
AGCCAGGTTACGTCACTGTCT
Band lengths:
352-842
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]