RnoINT0107704 @ rn6
Intron Retention
Gene
ENSRNOG00000004410 | Pax6
Description
paired box 6 [Source:RGD Symbol;Acc:3258]
Coordinates
chr3:95716239-95717321:+
Coord C1 exon
chr3:95716239-95716454
Coord A exon
chr3:95716455-95717155
Coord C2 exon
chr3:95717156-95717321
Length
701 bp
Sequences
Splice sites
5' ss Seq
AGTGTAAGT
5' ss Score
8.46
3' ss Seq
CCATTTGGTTTGATTTGCAGGTG
3' ss Score
9.83
Exon sequences
Seq C1 exon
GTGTCCAACGGATGTGTGAGTAAAATTCTGGGCAGGTATTACGAGACTGGCTCCATCAGACCCAGGGCAATCGGAGGCAGTAAGCCAAGAGTGGCGACTCCAGAAGTTGTAAGCAAAATAGCCCAGTATAAACGGGAGTGCCCGTCCATCTTTGCTTGGGAAATCCGAGACAGATTACTCTCCGAGGGGGTCTGTACCAACGACAATATACCCAGT
Seq A exon
GTAAGTTCATTGTGAACACTGTCTCCCACGCACCAAGCTCCTCACTCTCTCCCCATCTCTGGCACTTCTTTATCTCCTCCGGCTTTTCTCTCCCAATGCCTTATCATCTCTCTTCCTCTCTTCCCTGATTTGCATGGGTCTCCAGGGTACCTGGGGATATGGAGAGGTGGGCTTTACCTTTTTGACCATCTGGAAAATGGGAGTCAAGGGTGGGGAGTAGTTCACTTCATTTGTGTACCACAAACCAGGGGTCAAAGGAATTAGGGAAAGGCACTTGAATCAAGGAGGAAAATGAAAATGAAAATGGAAACCAGATTCTAAATTCCCCTCAAAGCACCTTCCTGAAGCTTCTTTCAGGCAACATGCATCCATTTCTGCTCTATGATAAAGTAAATCTCTAAATTAAGTTGAAATCTTTTATCATGGAGTCTTTCATCAAAACCAAGCAGCCCGGTGAGCTGTCGTTAGTGATGTTCTACAGAGGTGAAAGGCTGCTCCTTCCTTTTTATCCAATTTCATTTCCAGGAATAATATGATAGCTGTCATTCTTTCCACAATATAGCTAAAAATCCACGGACTGTCCCAGGATGGCTGGGAGCTTTTGCATATGTCATTCTTTAAAGCTTGGGAGAGCTGAGATGGGGACCTAAGATTGGGTGACTATGTCCTTAGGAGACACCACCATTTGGTTTGATTTGCAG
Seq C2 exon
GTGTCATCAATAAACAGAGTTCTTCGCAACCTGGCTAGCGAAAAGCAACAGATGGGCGCAGACGGCATGTATGATAAACTAAGGATGCTGAACGGACAGACCGGAAGCTGGGGCACCCGCCCTGGTTGGTATCCCGGGACGTCAGTACCAGGGCAACCCACGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004410:ENSRNOT00000005882:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
PF0029213=PAX=FE(56.8=100)
A:
NA
C2:
PF0029213=PAX=PD(6.4=14.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCAGGTATTACGAGACTGGC
R:
GTTGCCCTGGTACTGACGTC
Band lengths:
343-1044
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]