GgaINT1019975 @ galGal4
Intron Retention
Gene
ENSGALG00000013568 | NR4A3
Description
nuclear receptor subfamily 4, group A, member 3 [Source:HGNC Symbol;Acc:HGNC:7982]
Coordinates
chr2:89392579-89395602:-
Coord C1 exon
chr2:89395456-89395602
Coord A exon
chr2:89393466-89395455
Coord C2 exon
chr2:89392579-89393465
Length
1990 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
GTCCCCCTTTCCCCCTGCAGATA
3' ss Score
13.51
Exon sequences
Seq C1 exon
CGCCCCCCGGGTCGGAAGCGCGCCCCCCGCCGCGGCCATCCCCCGCCGCCGCCTCCGCGGAGAGCTCCCAGCCGGCGCCGACCCCGCCGCCGCCCGCCGCCGCCCGCGCCGCCAGCCCCACCATTCAGCGCGCAAGGTACCCGCCAG
Seq A exon
GTGAGCCGGGGGGGGGGAGCGGGGACGGAGGTGCGAGGCCGCCCCGAGCCGTGGGGGGGTGGGCGGGGAGCGGGAGGGGGGAAACCTGCGGGGCTCCGCGGGGGGCGGGATGGGAAAGCGGCGGTCGCGGCGGCGAGCGCTCCGGCCCCGGTCTCCCGCTCGGCTGCGTGGTGGCACGGCACCTCCCGCGCGTTGCGGCGCCGGGGCTTTTCGCGACAGCGTGGGGGAAAGAAGGGACGAGCGCGGATGTTCGGCTCCGCGGGGTCAGCGGTGTTGGCGCCCCGAGAGGAAGGGTCGCGTTGGGGTCAGTGAGGCGGAGGCGCTGGCGGCAGCGGGGTAGGAGGAGCCGCGTGGCCGCAGCGGACCTTTGTGTAGGGTCCGTTTTGCTGTCCCCAGGTCGGACTTATTTTAGACTCGGGCTTTCTCAGCGAGCCCGTAGCAGAACGCAGGCCGTAACTCCGGCGTGCCCAGAAACACCCCCCACCCACACCGCTGCCTTCCCTCAGCCACTGCGCCTGCTGGGAGCAGCTGAAAGCCCTTTTACCCCTTAGCGGGCTGCACGTCGGCGCGGCCCCGCGGGGCAGCGTCTGCCCCGGTGCTCGGCGGTGCGGAGGTGCGGGGAGGGCACTGCTCTCCCTTTGTATTTACTCTTGGAGCCGAACCGGCGATAGCAGCGGGACTTGGCATGGGCACAGATAGCCATAGGAAGAAAAGGAATGGTGGGAGATAGGCAGGGCTGGGAGGCGAGGCTTGGAAGAGCGCTGTCCTGCTGCCCGTTTTCTTTCAAAAAGCCGCGATTTTAGAAAGAGGCACTGTTTTGTGGGGTGTTTTTTTTTTTTTTTCTGCCACTTCTTAATGTTGACTCAGAAAGAAAAGAGATGGGAGCGCTGCGTGATGGCACGGTGAGAGCTGGCGTTCGGTTCCCATTTGCCTGCACAGCAGGGCTAGGAGTTGGTTTGGCACCTACTGGTTGGGTTCCCGCATGGCACGCTCAGGTGGATGTCTAAACATCATTAGCAAAGGGCGTCCTTAACGTACTAAAGCAAACCCCGTTATTTGCAATGCGGCTTTGTGTTTTAGCAGGAGTTATTTATCAGCTGCTTACCAAATACAAATTACCACAATTAAGAGGAAACGAACTCAATTTCGATGGACGTTTTCCCCGCGTTCCTCTTCTCCTTCACTGGGGAAAAGGCAGAGATGGGAGCGCTGTAGCCCCGGCTGCAGACCCCGGGCATGCCGTGTGCTGTGGGTTTGGGTTGCAGACGTGGGGCAGCAGTTTGCGGTCAGGTGAACCTCACGTGGGCTGCGGCCACGATTTCCTGCCAGCAACAAAGGAGGCAGTGCATCAGTGGGAAATGGGAAAGGACAAAGTCTTTGCAGCCGCGCGCCGCGTCGCTGCAAGCATCCCAGCTCTCAGTGAGCCACGTTAACTTTTACGGCTGATGGATGAAACCAATTCTGTTATCTTAGAGAAACAGAAATACCCCATCCTTCTTTCTCTTACAGTTTTGCACGTTCAGGGCTACGTTTGAGCTCTGACGCCCGCTGCCGATGTTGTTCCTTTCGTAACACGTAGCGATTCTGTTCTAATGCATTTGGTAATCTAGTTTACCCCTCATGAAGATTTTATGGCACTCTCGCACGCATACAGGGATAGATTTAGAACCATAAACCGTTCCCGTTCTGCTTATCTAATTCTCATTGACACCTATGGATATGGAGCAGCGGATCTGGGGCAGCCCGAGATGGATCCTTCTCCTACTGACATCGCTATAGATTGGAGTTGCTCCCCAATACCCGACCCCCAATGCACGTTTCTTGCTGAAGGGCAGCGGCTCGGGGCTGATTTATGCTTCTCACCTCCAGGTGAGAGCGGGAGGCTCCAACGGAGCTCCGGGAAATGCGGGCAGCTCGTTGTTGGGAAGGAGGTAGTGAGCGGGGCTGTGGGCCGCGGGGCTGGCTGTAACGTCCCCCTTTCCCCCTGCAG
Seq C2 exon
ATATGCCCTGTGTGCAAGCGCAGTATAGCCCTTCGCCGCCCGGTTCGAGTTATGCAGCTCAGACCTACGCGTATGGCTCGGAGTACAGCTCGGAGATCATGAACCCGGACTATGGCAAGCTGAGCATGGAGCTGAGCGGCACCGAGATCACCGCCACCGCCACCACCTCCCTCCCCAGCTTCAGCACCTTCATGGAGGGTTACTCCGGCAGCTACGAGCTCAAGCCTTCCTGCCTCTACCAAATGCAATCCGCCTCCTCCGGCCAGAGGCCCCTCATCAAGATGGAAGACGCTCGGCTCTCCACCTACCAGCCCTCGCTGCCCCCCTCGGTGGACGAGAGCATGCCCAGCACCTCCATGTACTTCAAGCAGTCGCCTCCCTCCACGCCCACCACGCCCGGCTTCCCCCCACACCAGAGCCTGTGGGACGAGCCCCCGCTGCCTCCCACGCAGACCTGCCTGCCCCCCGGCCACCTGATGGAGGCCGCTCCCATGAAGACTGCGCCTCCGCGCTTCCCCCTCTTCCACTTCAAGCACTCTCCTCCCCACACGCCGCCGGCGGGCCCCCACATGTGCTACGACCCGGCCTCCCTGAGCCTGCCGCTGGGCTCTGACAGACCGCCGGCCGGCCAGGCGCCCATGGAGAGCCACTCCTACGGGCTGCCCCTGGCCAAGCGGCCGGCCACCTTAGCCTTCTCACCGCTCGGCCTCAACACGGCTGCCTCCGGCCTCATGGGCGAGGCCAGCGGTGGTGGCGGTGGCGGGCTGCCCTCCCCGCCCAGCAGGAGTTCCTCGTCCGGGGAGGGCACGTGCGCCGTCTGTGGGGACAACGCTGCCTGCCAGCACTATGGTGTGCGGACCTGCGAGGGCTGCAAGGGCTTCTTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013568:ENSGALT00000022087:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.549
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0010513=zf-C4=PU(38.6=9.2)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCATTCAGCGCGCAAGGTA
R:
GAGGGCTGGTAGGTGGAGAG
Band lengths:
343-2333
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]