RnoINT0076949 @ rn6
Intron Retention
Gene
ENSRNOG00000039837 | Jade3
Description
jade family PHD finger 3 [Source:MGI Symbol;Acc:MGI:2148019]
Coordinates
chrX:1898834-1900241:-
Coord C1 exon
chrX:1899771-1900241
Coord A exon
chrX:1898952-1899770
Coord C2 exon
chrX:1898834-1898951
Length
819 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
3' ss Seq
TGCTGGGAATTTTCTTGCAGGTC
3' ss Score
7.88
Exon sequences
Seq C1 exon
TGCTCTGTGAAAAGCTGTATTACTGCCTTTCATGTCACCTGTGCCTTTGAGCACGGCCTGGAAATGAAGACCATCCTAGATGAGGGCGATGAAGTAAAGTTCAAGTCATTTTGCCTCAAGCATAGCCAAAACAAGCCAAAACTTGGAGATGCCGAGTACCACCACCACAGAGCTGCTGAGCAGAGCCAGGCAAAAAGTGAGAAAACCAGCCTACGGGCACAGAAGCTTCGTGAACTAGAAGAAGAATTCTATACCTTAGTCCAGGTAGAAGATGTTGCCAAAGAGATGGGGCTATCTGCATTCACTGTCGACTTTATCTATAACTACTGGAAACTAAAGCGCAAAAGCAACTTCAACAAGCCTTTAATCCCCCCAAAAGAGGATGAACAAAATGGCTTGGTTCAGCCAAAAGAAGAAAGCATTCACACTCGAATGAGAATGTTTATGCATCTGCGGCAGGACCTAGAGAGG
Seq A exon
GTAAGGTGACCAGCTCTGCATAGACCTTCAGTTTTAAATGACCACTCATTTATAGTGTGAGCTTCTGTGTCTTTCCTTATTGTCTGAGTTCACTCCAGTGGCCCCAGATGTTGAATTCTGTTTAAATTTTGACACATTTGTACTGTGAACTTTAACTTTGAGTTTCTTATTCTCAGTTGATTAGCTTTTTAATTCACCGTCAAGTCTAAAATGGCTCAGTTATATTTTACTAACACATTCCTGAGACTGAAGCTTAAAAGAATGAACTTTGTCCAGAAAAGTACTACTCTCAGGGTTTTCTCAAACTCAGCACTATTAATATCTTGAGCTGCATAGTTATTTATTGTGCTGTACTTCCCTTTATTATAAGTGGCAGAATAGAATATTTAACAGCATTAGTGATCTCTACCCACTAGATGCTAGCCAGTATCATCCCTTAAACACTTGGTTCTCACAACCAGAATTGTTTTCCAAGTTTACCAGAATCCTCCTATGGGTTAAAATCATCTCTGGTTGATAGCCATTTCATTATGTAAATTAAGTGCTACAATAATTCAAATAAAAGGTTGGTGCTGTGTTTACCCTAGGGAATTTTATAATTCTATAATTATAAAAATTATCCAGGCCTGATGGTACAGATGCCAAATGCTATCATTCATACTCAGGATAGAAAGGAAGGCTAAAATATAATACCATCTTCTCACCTGGATTGCGTACATTAATATTGATCCTATACAATGTAGACTAGAGATTAGGTTTCAGAGTTTGAGCAACTGTAAATTTGCTTAATATCTTTATTTGCTGGGAATTTTCTTGCAG
Seq C2 exon
GTCCGAAATCTGTGCTACATGATAAGCAGACGAGAGAAGCTGAAACTATCACACACCAAAGTGCAGGAACAAATCTTCGGTTTGCAAGTCCAGCTTATCAATGAAGAAATTACAGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000039837:ENSRNOT00000061140:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.293 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138321=zf-HC5HC2H_2=PD(35.1=25.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCACAGAAGCTTCGTGAACT
R:
AAGCTGGACTTGCAAACCGAA
Band lengths:
352-1171
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]