RnoINT0102987 @ rn6
Intron Retention
Gene
ENSRNOG00000007607 | Nr4a1
Description
nuclear receptor subfamily 4, group A, member 1 [Source:RGD Symbol;Acc:620029]
Coordinates
chr7:142917165-142917747:+
Coord C1 exon
chr7:142917165-142917294
Coord A exon
chr7:142917295-142917595
Coord C2 exon
chr7:142917596-142917747
Length
301 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
CTGCCTATTTTTCTCTGCAGTTG
3' ss Score
10.01
Exon sequences
Seq C1 exon
CGCACAGTACAGAAAAGTGCCAAGTACATCTGCCTGGCAAACAAGGACTGCCCTGTGGACAAGAGGCGGCGGAACCGCTGCCAGTTCTGTCGCTTCCAGAAGTGCCTGGCTGTGGGCATGGTGAAGGAAG
Seq A exon
GTGGGTGGCAAGATGGTGCCCTAGGCATAGGCGACCTGATGGGGTGGGGCATCCGGGCTCACCAGGATTTGTACCTAATTCCCAGCCCCACCTTTAGACTCCAGCTCCTAAATGCAGGTGTAGCTTCCACCTGCTTTCTGGAGAGGGTGGGTGGGGAGGGCCTTGTGGGGTCCCTGCCTGCCATGGTCTGGGTTCCCCATCTCGGACTTCTCAGAAGTGGGGTATATAGTGTGCACTGAAGACCGCCCCTTCTCCACGTCCCTTCGCCTCCTCTCTCAATACTGCCTATTTTTCTCTGCAG
Seq C2 exon
TTGTCCGGACAGACAGCCTAAAGGGGCGGCGGGGCCGGCTACCTTCAAAACCCAAGCAGCCCCCAGATGCCTCCCCTACCAATCTCCTCACGTCCCTCATTCGAGCACATTTGGACTCCGGGCCTAACACTGCCAAGTTGGACTATTCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007607:ENSRNOT00000010171:3
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=0.373
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
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCACAGTACAGAAAAGTGCC
R:
GGAATAGTCCAACTTGGCAGTGT
Band lengths:
279-580
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]