RnoINT0102989 @ rn6
Intron Retention
Gene
ENSRNOG00000007607 | Nr4a1
Description
nuclear receptor subfamily 4, group A, member 1 [Source:RGD Symbol;Acc:620029]
Coordinates
chr7:142918117-142918587:+
Coord C1 exon
chr7:142918117-142918319
Coord A exon
chr7:142918320-142918408
Coord C2 exon
chr7:142918409-142918587
Length
89 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGC
5' ss Score
8.8
3' ss Seq
TGTCCTCTGCTTCCTCGCAGATC
3' ss Score
12.67
Exon sequences
Seq C1 exon
TTCCAGGAACTGGTGCTGCCCCGCTTTGGAAAGGAAGATGCCGGTGACGTGCAGCAATTTTATGACTTGCTCTCTGGCTCCCTGGACGTCATCCGGAAGTGGGCGGAAAAGATCCCGGGCTTCATTGAGCTTTCCCCAGGAGACCAAGACCTGTTGCTAGAGTCCGCCTTTCTGGAGCTCTTTATCCTCCGCCTGGCCTACCG
Seq A exon
GTAAGCTGCCCACCATCCTCCTGACCCTGGCCCTGCTGCCCCAGCCTGCCTGTACCCTGAGGTCCTGACTGTCCTCTGCTTCCTCGCAG
Seq C2 exon
ATCTAAGCCCGGTGAGGGGAAGCTCATCTTCTGCTCAGGCCTGGTGCTACACCGGCTGCAGTGTGCCCGCGGCTTTGGTGACTGGATAGACAACATTCTAGCCTTCTCACGGTCCCTGCACAGCTTGGGTGTTGATGTTCCTGCCTTTGCCTGCCTGTCTGCTCTGGTCCTCATCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007607:ENSRNOT00000010171:5
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=0.000
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=PU(32.5=91.2)
A:
NA
C2:
PF0010425=Hormone_recep=FE(31.4=100)
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:
AGGAGACCAAGACCTGTTGCT
R:
GGGACCGTGAGAAGGCTAGAA
Band lengths:
182-271
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]