RnoINT0102975 @ rn6
Intron Retention
Gene
ENSRNOG00000010308 | Nr2f2
Description
nuclear receptor subfamily 2, group F, member 2 [Source:RGD Symbol;Acc:69305]
Coordinates
chr1:131451933-131454689:-
Coord C1 exon
chr1:131454064-131454689
Coord A exon
chr1:131452461-131454063
Coord C2 exon
chr1:131451933-131452460
Length
1603 bp
Sequences
Splice sites
5' ss Seq
AAGGTATCG
5' ss Score
8.7
3' ss Seq
TGTCTCCTTTCCTCCTGCAGCTG
3' ss Score
13.08
Exon sequences
Seq C1 exon
AAAAAGGAAAAACTAACTAACCTCAATCAACTAGCCCTGAGCCACCCGGGGCGCCCTCCCGCGCCCTCTCGCACCCTCGCACACACAAAAGGCGGCGCGCCGGAGCCCGAGACCCGGGAGCCGCCGCCACCCCGCCGCCGCCCGCAGCCAGGGGAGCAGAAGTCCGGACGCGGCCCCCATAGATATGGCAATGGTAGTCAGCACGTGGCGCGACCCCCAGGACGAGGTGCCCGGCTCTCAGGGCAGCCAGGCCTCGCAGGCGCCGCCCGTGCCGGGCCCGCCGCCTGGCGCCCCGCACACGCCACAGACGCCGGGCCAAGGGGGCCCGGCCAGCACGCCGGCCCAGACAGCGGCTGGCAGCCAGGGCGGCCCTGGCGGCCCAGGCAGCGACAAACAGCAGCAGCAGCAGCACATCGAGTGCGTGGTGTGCGGGGACAAGTCGAGCGGCAAGCACTACGGCCAGTTCACGTGCGAGGGCTGCAAGAGCTTCTTCAAGCGCAGCGTGCGGAGGAACCTGAGCTACACGTGCCGCGCCAACCGGAACTGTCCCATCGACCAGCACCACCGCAACCAGTGCCAGTACTGCCGCCTCAAAAAGTGCCTCAAAGTGGGCATGAGACGGGAAG
Seq A exon
GTATCGGCTTCTCATTTCTTCCCCCTTCGCCCGTGGTCCCGGGGCCCTGGGTGCGTTTGGCTAGCCTGCTCTGGGTAAGGACACAGAAGCCCCGAGCTCTCCGTGTTGCAGTCGGAGGGGATTTGGTACTAGGAGCGGGGTCTGCACTGCAACCCAGATCAGCCCCCACCCCCCACTACAGTCCGCATGCTTTAGCAGACTTTCCTTCTCCACTCTTTCTCCCTCTCTCTCCCTCTCTCCCTCTCTCTTCGGGCTGCTTTCCCTTCCTTTGCATTGATTGAGAGTTCATTCGAGTTCACCTTTCTGCAAGGAATGGGGTTGTTGTTTGTTGTTGTTTTAAAGTCCCCTCTCACTCTCTTCTCTTTCTCCCTTTCCTTGTTTTTCCTGCATGTTCAACATATGTCCCTCCTCCTTACCACTCTCCCAACCCCCACCTTCTCAAAAAAAAAAAAAAAAAACCAACCTGAGATTGTACTTTTGTACAGGAGGTTCAAATTACAAATGGCAATTTTATGCACTTCGCCGTATTAACGCTGCCGCCTGGGCAGAGCTCATGTGACCCCTCTATGGATTAACATTCTGCTTAAAAAAATACCTCTTGTTTTCTTTTTTTCCTTTCACTTTTGAAACGTTGAGAGCACTGTAGGGAGTAGGAAAGTGTGGGCAAGGGGCCTTGGGCCGCTGCTTTCCCTCTGCGCCAGTTGGGTCTTTGTGATATAAAATTATCCCAGAGCCGGGAACAGTGCTCTACCAATGGCGCGCTCCGCGCCGGGCGCGGGCTGCGGGTTGGAGCGAGCCACTGCCGGGATTTCTTTGTGTTTCTGCGAGAGCGACTCTCCGGGTCCTCAGTCAGATAACAGCGGGTGACTGAGCCTCGCTGGCTTTCTCCGGTCGTCACGGGCCTTGCCTGGGCTCCGCCAGCGCCCCACTCCTGCTCCCAGCCTCTCTCCGGCTTCCTCTCCTCTCTGACGGCCTCTCTCTCTCTCTCCGCCCTCTTCTCCCTGGTCTCTACTCCTCCGAGCTGAGCTCACGGATCCGACAAAGACGCCAGACCTAGGATCTGTCTCTCGCCAGGGTTTCCCTCCTGGGCTGGGATTGAGGTTACAAGGTTTGGGGACAGTCGTTCGGAGGTGGCCACAGGCCATCTGGGGTAAACCTTAACGTCTTGTGCAAAAGCGTCTCACCCTCCCCCTACACTCTCATCTCGTTCCTTTTCCAATCAATAAGAAATATAAGCTGTTTAGCAGTTTAAAAAAAAAAGAAAGGAAGAAATGAAATGAAATGAAAGGTGCCCTCAGAATATACTACATACTGCTTGCAGCTCCAGGGACCCCCCATTCAAAGTGACCAATTCTGGGCCCTCGGCGGACCAACGGTAGATGGGCCTCACAGGCAAGTGTTGATCTCTGGCGATCAGAGCTGGCCGGGGAAGTGATTTGTGAGGAGTGGTTGCGGGCCAACCGGCCAACAGACTCTTGGTCTTTCTGTAGCTGGCCTGCCTGTTTCTTGGCTGTTCTAGGGCCTGGGACAGGTTGGTGTCTTGTAGAAGGATGCGGGACTAAGGCTGATCATTAACTGTGGAGTGTCTCCTTTCCTCCTGCAG
Seq C2 exon
CTGTACAGAGGGGCAGGATGCCGCCCACCCAGCCTACTCACGGGCAGTTTGCACTGACCAACGGGGACCCCCTCAACTGCCACTCGTACCTGTCCGGATATATTTCCCTGCTGCTGCGCGCGGAGCCCTACCCCACGTCGCGCTTCGGCAGTCAGTGCATGCAGCCTAACAACATCATGGGCATCGAGAACATTTGCGAACTGGCCGCACGGATGCTCTTCAGCGCCGTTGAGTGGGCCCGGAACATCCCCTTCTTCCCTGACCTGCAGATCACGGACCAGGTGGCCCTCCTTCGCCTCACCTGGAGCGAGCTGTTCGTGTTGAATGCAGCACAGTGCTCCATGCCCCTCCATGTTGCCCCGCTCCTTGCCGCTGCTGGCCTGCACGCTTCACCCATGTCAGCCGACCGGGTGGTCGCCTTTATGGACCACATACGGATCTTCCAAGAGCAAGTGGAGAAGCTCAAGGCACTGCACGTCGACTCCGCCGAGTACAGCTGCCTCAAGGCCATAGTCCTGTTCACCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010308:ENSRNOT00000014152:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.541 A=NA C2=0.066
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=WD(100=47.3)
A:
NA
C2:
PF0010425=Hormone_recep=PU(67.3=74.6)
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:
CTCAAAGTGGGCATGAGACGG
R:
GCTGCATTCAACACGAACAGC
Band lengths:
356-1959
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]