GgaINT0099331 @ galGal4
Intron Retention
Gene
ENSGALG00000013568 | NR4A3
Description
nuclear receptor subfamily 4, group A, member 3 [Source:HGNC Symbol;Acc:HGNC:7982]
Coordinates
chr2:89390586-89393465:-
Coord C1 exon
chr2:89392579-89393465
Coord A exon
chr2:89390716-89392578
Coord C2 exon
chr2:89390586-89390715
Length
1863 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
TTTCTGTTGCCTTTTCTCAGAGG
3' ss Score
9.1
Exon sequences
Seq C1 exon
ATATGCCCTGTGTGCAAGCGCAGTATAGCCCTTCGCCGCCCGGTTCGAGTTATGCAGCTCAGACCTACGCGTATGGCTCGGAGTACAGCTCGGAGATCATGAACCCGGACTATGGCAAGCTGAGCATGGAGCTGAGCGGCACCGAGATCACCGCCACCGCCACCACCTCCCTCCCCAGCTTCAGCACCTTCATGGAGGGTTACTCCGGCAGCTACGAGCTCAAGCCTTCCTGCCTCTACCAAATGCAATCCGCCTCCTCCGGCCAGAGGCCCCTCATCAAGATGGAAGACGCTCGGCTCTCCACCTACCAGCCCTCGCTGCCCCCCTCGGTGGACGAGAGCATGCCCAGCACCTCCATGTACTTCAAGCAGTCGCCTCCCTCCACGCCCACCACGCCCGGCTTCCCCCCACACCAGAGCCTGTGGGACGAGCCCCCGCTGCCTCCCACGCAGACCTGCCTGCCCCCCGGCCACCTGATGGAGGCCGCTCCCATGAAGACTGCGCCTCCGCGCTTCCCCCTCTTCCACTTCAAGCACTCTCCTCCCCACACGCCGCCGGCGGGCCCCCACATGTGCTACGACCCGGCCTCCCTGAGCCTGCCGCTGGGCTCTGACAGACCGCCGGCCGGCCAGGCGCCCATGGAGAGCCACTCCTACGGGCTGCCCCTGGCCAAGCGGCCGGCCACCTTAGCCTTCTCACCGCTCGGCCTCAACACGGCTGCCTCCGGCCTCATGGGCGAGGCCAGCGGTGGTGGCGGTGGCGGGCTGCCCTCCCCGCCCAGCAGGAGTTCCTCGTCCGGGGAGGGCACGTGCGCCGTCTGTGGGGACAACGCTGCCTGCCAGCACTATGGTGTGCGGACCTGCGAGGGCTGCAAGGGCTTCTTCAAG
Seq A exon
GTGAGACACCCTGCTCCCCTCCCTGCCTGCCGCCCCTGGGCTTCAAGCTCCGCACCCATCACTGGTAGTGGTAGAGGTGGCTCAGAAGGTCAGAGCGGCACCAGCACGAGGAGGAAACCTCAGGCAACGTTGCCTCGGTGCTGCTCTTGGTTCAGGTATCCCAGCACTGTAGCTTTGAAGCACTGCTGACAGCAGTAATCCACTTTGAGGGAGACAAAGCCATGTGCTGACATTTTTAAGACTGGAATTCCTTCTGCTTTTAGATTTGGGCACCTCATAATTTCAGCGAATTTAGTTCAGGTTTCGGTATATTTTTTTTTTTTAAGAAATGTTGCCAACGAAGCATTCAGGACTTTTTGGGGAGTGGTTTTGAGCAGTAGGCTTTAAAAAGTTGATAAATTCAAGGCCAGGTTGGATGGAGCTCTGGGCAGCCTGAGCTGGTGTGGGGCAGCCCTGCCCATAGCAGGGGGTGGGGTGGGGGGGCTTTGAGGTCCCTTCCAACCCAAACCATTCTGCGGTTCTGTGAGTCTATGAAATCTGGGGTTGATTGAATGTCTTTCTTTCAGCACAGATAGGAATTGTGCCCCTGTTCTGGCAAAAGATATCCTAACTACGATGGGAACAAAAATAGTCCCAAAATAGTTGCAGGGGAGGGCTCACCTCATTATGCTGTTGTTGTCGTGCACAGAACTGCTACTACTACTTGGTAATAACCCTTTGGCAACGTGCTAAAATACACATCTCCCCTGCAACTTGCTTGTTATTTAAAAGTAATTATAAAATGGAGCACAGATAACCTGGAAATGGCAGCTCCTGTGGGTCTGATCCTGCCCCCGTGGAAACCCATAGCATGTCCCTCGTTGGGGGCAGGATCCACAGCTTGTCGTGCACCCTTCTTTTCTCGGTTCTAAAGTGCAGTGAGCAGCATTTGCTGTGTCCCTTGTATTTAGTCCATTGCAGCTGCTGCTTGAAAAAGAAGGAAAGTGTTAAAATAGCATTTCCCCAATAATTTAATTGCAGTGAAAGATTTAATACCGAACGCTGAACTGATGAATTTGATCCTCTTCTGATGTCTTTCCTATTAATATCTTTCGGTGCTAAGCTGTCTTTGACTTTTAAGTACAAAAACAATATATAAATGTCTTAATCTATTATAATAATATATGTATGTATTTGTGACAACTCCTATTACATTCTTTCGAGGCTCACCAAGGTTTGTACAAATTTTTCACGTACTGCATAGGTTATATGTAGTTATATGCAAGCCATTTTAAGCGTTAATTACATGTGTATGGCTACAGTATAACTGGGTCCATTTTTTCCCAGAAGTCAGGCCGGCTTTCCCAGAATATTGAACGGAACCTATTTGGAGGAGTTCTGCTATTTTTACTTTTCTTCCCGCTGATTTTAATGGCCAACCAAAGCAGTTGTTGTGGCATTCGCCTAACAATAGCGATAGCAGGAGAAGTACATCGCAGATCGTTTTGATTTTGTTTTAATAAGGTCAGCAATAATCAAGGGAATGAACCAAGTAGAAAATTGTTCCCAAAGGGATATTAAAAGCGGAGATAATCTAATCCCCAAAGGTAGATGCGATGACCTGGTAATTTCAGATATGATTTTATCATTCAAAGTTGCCTGTCTCCGGAGACTTGCTTCAGAACAATCCTCGATGATTCTCATTGTCAGTAGCTAACACTAATAAAATTGTTTTTCCTGCAGGCTAGTGTGTTAGGAAATTAATTTTATCTAATTATATGAATTGCACTGTCGCTTTTCATGTTGTAATTAAAATACATGTTGTCAGGTTCCAAGTTGCTCACGAAACTCTCGGCTCGCTGTTTTTCTGTTGCCTTTTCTCAG
Seq C2 exon
AGGACGGTTCAGAAAAATGCAAAATATGTTTGCCTGGCAAACAAGAACTGTCCGGTGGACAAGAGACGCCGTAACAGATGTCAGTACTGCCGCTTTCAGAAGTGTCTCAGCGTCGGCATGGTGAAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013568:ENSGALT00000022087:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.549 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=PU(38.6=9.2)
A:
NA
C2:
PF0010513=zf-C4=PD(58.6=93.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGAGCCACTCCTACGGGC
R:
AGACACTTCTGAAAGCGGCAG
Band lengths:
353-2216
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]