RnoINT0103001 @ rn6
Intron Retention
Gene
ENSRNOG00000005964 | Nr4a3
Description
nuclear receptor subfamily 4, group A, member 3 [Source:RGD Symbol;Acc:61882]
Coordinates
chr5:63792507-63793279:+
Coord C1 exon
chr5:63792507-63792636
Coord A exon
chr5:63792637-63793106
Coord C2 exon
chr5:63793107-63793279
Length
470 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
CCCTCTCTGTGTCTCGTCAGTTG
3' ss Score
9.62
Exon sequences
Seq C1 exon
AGAACGGTGCAGAAAAACGCAAAATATGTTTGCTTGGCAAATAAAAACTGCCCGGTAGACAAGAGACGTCGAAATCGATGTCAGTACTGCAGGTTTCAGAAGTGTCTCAGTGTCGGGATGGTGAAGGAAG
Seq A exon
GTAAGACCGTGCTTTTCATCTGGTTTGCTAATGCTTATCCTCAGACAGTGAGATCTGCTAATGTTTACACCGAGGCAGCAAATTTTCCTAGTGTTCCTTTCTTTCAATCATTTTCCTTGTAACGGTGTTTATATTTACACTAAAGTAACATGGAGGACTGCTCATTCTAATTTCTCAAACCAAAAAAAAAAAAAAATCAATTTTATAAAAAGCCATTGTTCTATTTGAGAAGACTTTCATCACCAAATGTGAGTATGGGGTAGCTTTTCTTTCTCCTGATTATGTCAACTCTCGCTCAATCCCGGTTGAGCCTTCTTCCAAACTTAACACTGCTCTGAAATGGGGGGTCTCATTCATCATTGCCAGACTCTAATGTGTTTGGATTCCTCTTCATGATTTATGCCTACTCCAAATGTGAGCTTTAAACAGTGGTGTTTTTTTTTTTTCCCTCCCTCTCTGTGTCTCGTCAG
Seq C2 exon
TTGTGCGTACAGATAGTCTGAAAGGGAGGAGAGGTCGTCTGCCTTCCAAACCAAAGAGCCCACTACAACAGGAGCCCTCGCAGCCCTCCCCACCATCTCCTCCGATCTGTATGATGAACGCCCTTGTCCGAGCTTTAACAGACGCAACGCCCAGAGACCTTGATTACTCCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005964:ENSRNOT00000008302:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.534
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=PD(58.6=93.2)
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:
GAACGGTGCAGAAAAACGCAA
R:
TCTGGAGTAATCAAGGTCTCTGGG
Band lengths:
302-772
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]