DreINT0106168 @ danRer10
Intron Retention
Gene
ENSDARG00000100940 | nr5a2
Description
nuclear receptor subfamily 5, group A, member 2 [Source:ZFIN;Acc:ZDB-GENE-990415-79]
Coordinates
chr22:22691943-22694332:-
Coord C1 exon
chr22:22694125-22694332
Coord A exon
chr22:22692062-22694124
Coord C2 exon
chr22:22691943-22692061
Length
2063 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
TCATACTCTTATGTTTTTAGCCC
3' ss Score
7.23
Exon sequences
Seq C1 exon
GAAAAAAGAAGGGTAGTCGAAGTCAAGCCGAGGATTTGTTTCGGACGTTTGGACGGCGTTTTTGAGAATCTGTGGTGGCGCGCAGGCGGAGCGGCGCGCGCTCATCATCGGCTCAGCAGAGCTGTCATGCTGCCTAAAGTCGAGTCAGAATATCTGGGACTCGCTCGATCGCATGGGGAACAGGGGCATATGCCTGGAAACATGCAAG
Seq A exon
GTAAGCGGCATGCTTGTCTGAAGAAATGTGCGCCATGCACTCTCATCCATGCACTGTTGGACATGTCACAGTCAGTGATCCTTTTAGACTGCACGCCACAAATACAGCTCACACGTTTTGTCACTGAAAATTGTAGTATGAGAAAATATTTTGTACGTGAACACGCTTCAAATGATAAAGACGTAAAATAGTTGAGCAAAAGAAGCCAATTGCTTGCATTTAGCCTACTTTAGTCGCTCTGCGTAAAGATAAATTAGGAAACAAAGTGCAATAGCTGAGCGTGAATTATTTTGAGCTGAGTGAACTTTTATAAACTCAACATGACCTGCATCACCTGTCAATGAATTTGTTCTTAGTATATACAACAGAAGAGGAAAACGAAACCATAATAATGACTATGACAGAGCTCAGCTTTACGGCAAACATAAATCGTCCAAAATAGTTAAGCCTGCATATGCTGCACTTTTTAAATGAAGATTCCTGTCAGGACGAAATAGATTTAGAAAACAAGCTACCAATAGGTCACATATGAGAAACCGACCGACAATTTATCTTTTAATGTGAACTCAGCGAATTTTAAACATTCGTAACTTCAAGAATGAAGTTTTTATAAAATTATGATGTATTTATTATTAGTTTTAGGAGCGCACATTTTCGGTCGTTCTAAATAAAATGCAATCTAATGCATTGCGCGCGTTCAAGTGACTGAAAAACAACCTTTATTATTATCACGAAATATGTCAAACCTAAAGCGATAAGTAACCTATAATGAGATTACAATTCATGCACGAGAGAAATTGGGAGTGAGAGAACGTCAGCCCTTGTGTAGTTTGGTAAGATATTGTTTTACAAATATAAATGTCTTTTTAAATTCATTCATTTAAATTGTTTTTGTTTTTACGCTACAAGTCGCAAAACAAGCTGTTACCAGCCGTTATATATAGGTCTAACAAATTATTCTAACAAATCAGTGAACATGTCAGCCGTGTATAGCTACATTTAAAACTAAATTCATAAATAGAGAATAATCGACGAACTGAAAATGCTTCAGACTTGATTATTGTCAATTATTGCAAGCTACATATATTTGCGTTGGTGCTTTTTTAAAGGCACTTGTTGCGTTGTGTTTAAAAAATGAACAAATAACGAATTTAGAGGGTATTTCATTATTATGGAATAATAATGCGAATATGTTTAGTTTTATTGCTCAAAGTTCCTCTTTACTGTACATGTGTCTGTCTCATACGAACTGTTTCTTTTTCTAAGGAAAATGTGTTATGACTGTTTTTTTCCTTCACATTTTAATAAAAGCGCATTCTTCAGACGCCGATGATTCCCAAACTGCACCAGTTTATTAGTGATCATGCTAATTAAAATGTGAATTGACATTACAACAAAAACACATTTAACTCCTTTATATAAAGAAGTAGCAGGCCCACAAAAGGCACACGCCACGGTAAATGTTTTATTTCGCATGCAAACAATTCTCGTTCATTTACATCTTGTTTTGCTTTTGTTCGCCTCGTGGCTAAACGGTCCACTTCAGCGCGAGACAGCAGCCTCTCTCGTGCTCCCACACCAATTTACGAGCCATCATGAATATTAACCAGATCGAAACTGAAGTTTTACCCTGTCTGCGACCATCCTCCACACCCGACTCGTAGCTTCGTCAAGTTCCCAGAGACCCAAAACTGCATATTCTTACAGAAAATTCACTCTTAAGGCTAGACTTGGTGAACAACTGGTGGTTCGTATTTTATTTATTTCTGCAAAAACTGCAGGCTACACGTAGACGTTAGCCGAAGAGATGGTTACAATTGAAATATTTGCTTTAAAATGATGTTTTTTCAATCATTGAAGCTCTGAATTTGTTTAGTCTTTTCGTTGTGGAGATTCAAACAGTTCTTGTTTTTTTAGCTGCTTCTTAATCTTTCAAAACGAACCTCATAACACATGACAGCCAAACCATTTTTTATTTTTTTTGTCAAAAAATAAATTAATTAATTGAATAGGTTCTGTAATGTAAATTGTTACTCACTGTATTCATACTCTTATGTTTTTAG
Seq C2 exon
CCCCACAGTTTAAAATGATGGACTACTCCTACGACGAAGACTTGGATGAGATGTGTCCAGTGTGCGGAGACAAGGTGTCCGGATATCACTATGGGTTGCTGACCTGTGAGAGCTGTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000100940:ENSDART00000166794:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.214 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0010513=zf-C4=PU(32.9=57.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]