RnoINT0110699 @ rn6
Intron Retention
Gene
ENSRNOG00000007979 | Phospho2
Description
phosphatase, orphan 2 [Source:RGD Symbol;Acc:1359274]
Coordinates
chr3:56030915-56031552:+
Coord C1 exon
chr3:56030915-56031081
Coord A exon
chr3:56031082-56031518
Coord C2 exon
chr3:56031519-56031552
Length
437 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAAG
5' ss Score
4.41
3' ss Seq
GTTGTGCTATCTCTCTTCAGGTT
3' ss Score
11.26
Exon sequences
Seq C1 exon
CTGGAACGGATGCTGGTGACCGGCTGCGACCCAGGCCAGGGTCAGTGAGGAGCCCTCGGTCCCGTCCAGCCGGTTCCGTTTTTCTGAGACGCTGCGCTAGTTTGGAGCCGGCCGGTGTGCGAGTCGAGGCCCAGGCTGGGTTTCTACACTGCGCCTCGCTGACTGAG
Seq A exon
GTGAAGGACAGCCCTCTTTGAACACAGAACCATAAAGATTAAGGGACATAAAAGGTGTTTTTAAATGATTTGGTTTGTAAGGCATAGTCAGGACTAGATGAGACCCTGTCAGTTGTTGTTACATAGGCAATAAAACTTGAATGTTGTCCCCAGAACATTCGAGTTAAGACCTTTAACCCATACTGCTTGGTAAAGAAATTGTAGTTAGTGTGCTTGGGGAGTGAGCCAGGCTCTAATGACACAATAAAGATATTAAAGTGGACTGGTACTTGATCTCAAAAGAGACTCTCCTGACATATCGATGTGCAAATGGTTTCATTACTATATCGTTGGTACTATCGACTAATTAAGCAACATTTGATATTCCTTAAAATGAAAGTAAATGCGAATTTTCAATAATGAACATTCTAACCCAAAGTTGTGCTATCTCTCTTCAG
Seq C2 exon
GTTTTCTATCAGATGTTCCACTCTAATAATGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007979:ENSRNOT00000010489:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
CTGGAACGGATGCTGGTGAC
R:
CAGCATTATTAGAGTGGAACATCTGA
Band lengths:
201-638
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]