RnoINT0102988 @ rn6
Intron Retention
Gene
ENSRNOG00000007607 | Nr4a1
Description
nuclear receptor subfamily 4, group A, member 1 [Source:RGD Symbol;Acc:620029]
Coordinates
chr7:142917596-142918319:+
Coord C1 exon
chr7:142917596-142917747
Coord A exon
chr7:142917748-142918116
Coord C2 exon
chr7:142918117-142918319
Length
369 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
TTAACCTGTGTTCCATTCAGTTC
3' ss Score
8.93
Exon sequences
Seq C1 exon
TTGTCCGGACAGACAGCCTAAAGGGGCGGCGGGGCCGGCTACCTTCAAAACCCAAGCAGCCCCCAGATGCCTCCCCTACCAATCTCCTCACGTCCCTCATTCGAGCACATTTGGACTCCGGGCCTAACACTGCCAAGTTGGACTATTCCAAG
Seq A exon
GTGAGATCTTGCCTGTCCATCCACCCTGCCCTGAGAACAAACACAATGCCTTTGTGCCTGTTAGGAAAGGCTCTCCCTCCAGGGCAACATCAGGAAAAAGGATCCCCTCTGGGCTGGCTAGTTGGAGAAGTGCACTGTGGTGGGCGTGGGGTCAGGGAGCAAATTACAAACAGCCACCATAGCGCTGGGTTTCCCTGTGGGAATTGACAAGCACATGGGCCCAGTCTGGGGCTCCTTTGCACTCCTGGATCTGGTGTCCCAGTGCACGAGACTCTAATGCAGCTGGTGCAGGCTGTACTGTGCAGCCAGTGCTCGACACAGCTGTGTGGGGCAGGCCCTGCTGTGGAACTTAACCTGTGTTCCATTCAG
Seq C2 exon
TTCCAGGAACTGGTGCTGCCCCGCTTTGGAAAGGAAGATGCCGGTGACGTGCAGCAATTTTATGACTTGCTCTCTGGCTCCCTGGACGTCATCCGGAAGTGGGCGGAAAAGATCCCGGGCTTCATTGAGCTTTCCCCAGGAGACCAAGACCTGTTGCTAGAGTCCGCCTTTCTGGAGCTCTTTATCCTCCGCCTGGCCTACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007607:ENSRNOT00000010171:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.373 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0010425=Hormone_recep=PU(32.5=91.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTCCGGACAGACAGCCTAAA
R:
AGGCGGAGGATAAAGAGCTCC
Band lengths:
345-714
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]