RnoINT0103014 @ rn6
Intron Retention
Gene
ENSRNOG00000000653 | Nr5a2
Description
nuclear receptor subfamily 5, group A, member 2 [Source:RGD Symbol;Acc:68353]
Coordinates
chr13:53853846-53855642:-
Coord C1 exon
chr13:53855524-53855642
Coord A exon
chr13:53853988-53855523
Coord C2 exon
chr13:53853846-53853987
Length
1536 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGC
5' ss Score
5.42
3' ss Seq
CTATTTTTTCTGTCCTATAGGGT
3' ss Score
11.2
Exon sequences
Seq C1 exon
TGTCTCAATTTAAAATGGTGAATTACTCCTATGATGAAGATCTGGAAGAGCTGTGTCCTGTGTGTGGCGATAAAGTATCTGGGTATCATTACGGTCTCCTCACCTGTGAAAGCTGCAAG
Seq A exon
GTTTGCTTTTTCTGTGCTACCTAAAAAGATAGAAGGTTCTGACCAAAACCATGGAAACTCTTCAAAGCTAAACCTAAGCTTTTTTTTTTTTTTTTAACTGAAAAGTGAGGGATGGAGGTGGCGGTGTCATAGGGAGACTGATACTTAAAATATGTCTGATTTAGTTCCAAAGGCAAAGGTACATGTGCTGTTGAGGAAACTGTCAGACTCCTGGCTTTAACATAGTTTATTGTGGTGTACTGCTCTATCTGTAGGACGGCTTTACTCCTAACAGTCCTAAATATTGATTTTACTTGACTTAGATATATTTAAAGCATAGTTCTTAAAAGGAAACGTGACAGAATAACCCAAGTACATTTTAACTTCAGAGAATTCTGTGCTGCAAGTCGGAACACTTTTTTTCTTAAATCCAGAAGACATGAAGGTCTGAGCTCCCAACTGACTGCATGATTTCATCCTGATGGATTCTGAAAATAATTTTTCAGAATTTTTTTTAAGATTTTTTTTTAATCAAGGTATCCAGAAACCAGATTTTAGTTTCTAATCGAACAATGTTGATAAGTGTACCATACAACTTATTTAAATGCAGGGGATTTGAGTATATTCAGTGTCTTTTACTGTTAATAATCTCGCCAAGACCTTAGGGATTTGTCAGGTTTTTTCCTAAATAGTCCCTCTAAATTCTATTTTCACTAATTTCCCCCCAACATCTTCTTTAAAGTAGGGACTCGAATGCATTTACTTAAGCCTTTGCTAGGAAATGCCCCTTCACTTTCCACAACAAATTCAGATTGTTTTTGTGTATGCTCACTCAGGCAAGGATACCATCGTAGGGGAGAGTGGAGGGGCCACTCATTCGAGAGCCATGCACCATTTCTGAGCGGACTCCTTAAGTGTAAACAGGCCCAGGCTGTGCTGTGGCCCAGCTTCGTGGCTTGTGCACACACACACACACAGCCCTGCTTGTGTGCCTGTCTTTTCCATTACTTGGACTTTTAAAACACAGCTCCCACCCTTGAATGGGTTCCAGTGGCATTAGGAACATTTCCCCATTTTGTTCTCGAAGTCCTTTTCCTTTTAACTGTCAACTGTTGACATTTGTAAAAGATCTGAGGTATTTGCTATTCAGTTCTTACAATGGTTTGTGACTGAAATTGTATGAGACTACCTAAAAACAATGCAGCAGGGTTCTATGACTTACCTCTGCTTGGAACATGGATGTTAATAGGAAACCAGATTTTTTAAAAAAAAATTGGTCAATATGGAGTGCATTTTTTTTCCCTTACTATTGGAACGAAGTGGTGCAAAATTGATGTAATTCTTCAGGAATATAATTCTTCTGAGGCCAGAAAAACCTTCACTGAGGCCTGGCACTGATGCTAAGGGTTGGTCTTGCTGAAATGTGAAATCAAACCACAGGACCACATCGGGCTCAGTGGCACAATCAAAGGACTTACTGGTGATCTCCTTAGAGTGAACCAAGAGAAGCGAGTTAGACTTTATTACATAAGTCTCACTATTTTTTCTGTCCTATAG
Seq C2 exon
GGTTTCTTTAAGCGAACAGTCCAAAACCAGAAAAGGTACACGTGCATAGAGAACCAGAACTGCCAAATTGACAAGACACAGAGAAAACGATGTCCTTACTGTCGGTTCAAAAAATGTATCGACGTTGGAATGAAGCTGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000653:ENSRNOT00000000812:4
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=0.000
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=PU(32.9=57.5)
A:
NA
C2:
PF0010513=zf-C4=PD(64.3=93.8)
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:
TGGTGAATTACTCCTATGATGAAGA
R:
CCTCCAGCTTCATTCCAACGT
Band lengths:
246-1782
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]