DreINT0106170 @ danRer10
Intron Retention
Gene
ENSDARG00000100940 | nr5a2
Description
nuclear receptor subfamily 5, group A, member 2 [Source:ZFIN;Acc:ZDB-GENE-990415-79]
Coordinates
chr22:22690109-22692061:-
Coord C1 exon
chr22:22691943-22692061
Coord A exon
chr22:22690251-22691942
Coord C2 exon
chr22:22690109-22690250
Length
1692 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTGT
5' ss Score
6.64
3' ss Seq
TCATTCACCTCACTCTGCAGGGC
3' ss Score
9.44
Exon sequences
Seq C1 exon
CCCCACAGTTTAAAATGATGGACTACTCCTACGACGAAGACTTGGATGAGATGTGTCCAGTGTGCGGAGACAAGGTGTCCGGATATCACTATGGGTTGCTGACCTGTGAGAGCTGTAAG
Seq A exon
GTGTGTAACATCAGCTGTTTTTATCTTCTCAACTGGTCACCCTAAAAAAGCATTGTTCTGATAGGGAGAAAAACAATTGTGGACAGAACAAAGCTTACGTTTTAGAATATTTGTTGGTGTTTGAAGAGAGAAGAGAACTATTTTAAATACCTTGTGTTGACCTTGAAGGTTGTGCATCCATTCAAATGGTATTTTGAAGCAAATCCAAGTAAGATTTAGCACAACCGCACCATCACATTCATGAAAATTTTGCTTTTAATGATTTTTAGTATTGTAAATTTTTTGGGTCACAATCTGGACTTGATTCCAAATTAGTTAAAGACTCATCTAATGTGTTTTAATTCAGTTTTTCCTACCAAATTATTACAATGTTTTTATTTTATTAAAATCAAATTCCTATGGACTTTTTTGTTATGTATTTAGTGTATAATGTGATTTTATGGAAAAGACTGTGTGTTTAAAGGTAGAAAATGACTATTTTTGTCAACTGAAATCCCGTGGTGTGTTTATTTCTCGACACCGTTAAAGGTTTTGGAGTTCACTCACTTGAAAATCTGGTGTCTTTCTCTCAGATAAAAGCACACACACACTGACTCACAGTGTTTTTTTTTCCCCTAAAGGTGTTATTCGGTGGTTGATTTTCTTCTTTAATTGTCAACAGATCTCTTATCCGCTCAGTATCGTCTTTTTGAGTTTTGACTGAGATGTAAATGTCATTTAAATAAATCTAATTTAAAATTCTCTTTAAGGTTTTTAAATGCTATAGGTACCAACCTGTGGAATACCTTACATAATTTTAAATTTGCCTTGTTTTAATGATTTAGTCTCTATTCAAGGTTAAGCACTTTATGAACTGCATGTGTGTGTGTGTATGTGTGTGTTATTTGAGTTCTGGCCAATATTGATCCTTTTAGTTTTAAATGGGCCAGTCTCCCTACGGTGTTGATCAAGAATAAGTTAATGCCGTTCCTCGTTTGATTCTCTCCAGCCCTGAAAATGAATTCAGAACAGTTGCAGGTGGAATCTTGTAATCCTGTGGCTGTAAATTATGGATATAATTTATTGGATTTTTTCACTTGCTTTTTTTTTTTTTTTTTTTGCTTCTGCAGTATGAATAATAGGATCAGAGACGTTCAACGGGAATTTATTTGGAAGAAATTTTGGTAGTTGTACGTCACATTTGGACTTTAAAGGTGCTTGAAAAAGCCAAATTAGACTTAATTAAAGTTTCACAATACTTTCAATGGCTTGTGCTCATAATTCCTTCAATGCTAATAGCTGAAATATCACTAGGTCACCATGCTAAATGGGACTAAAGAGAATCTTTTTATTAGTGCCGGTACACTTAGTCCACTCTCTGTCTCCAATCTGTTGGTTTCCATCCTCAGCATGTATTTTTGTTTGTTCATGTCAAGTGTGCGTGTGGGTGCACATGTCAGTTTTTGTGTGGGTGTGTGTGTTTGTGTTTATCCAAGTGAGCGTCGACTGCTGAGGGAGCGTTTCTATGCCCGTGGCTCTACTTTTATATGTGTCTACTTGTGTGGCAGTGTGTGTAACACCTCTTTTTTTTCTGTGTGAATGGATACGAGCGTTTTTTTTCCGTATGTGTGTGTGGGTTGTCTGTGGCTGAATAGCACATTAACAAACACCGGAGGTCAAAAGTTTGACATCTTCATTCACCTCACTCTGCAG
Seq C2 exon
GGCTTCTTCAAGCGCACGGTGCAGAACAACAAGCGCTACACATGTATAGAGAACCAGAGCTGTCAAATAGACAAGACCCAGCGGAAACGTTGCCCCTACTGTCGCTTCCAGAAGTGCCTCACAGTCGGCATGAAACTGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000100940:ENSDART00000166794:2
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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCCACAGTTTAAAATGATGGACT
R:
CCAGTTTCATGCCGACTGTGA
Band lengths:
258-1950
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]