GgaINT0099332 @ galGal4
Intron Retention
Gene
ENSGALG00000013568 | NR4A3
Description
nuclear receptor subfamily 4, group A, member 3 [Source:HGNC Symbol;Acc:HGNC:7982]
Coordinates
chr2:89389459-89390715:-
Coord C1 exon
chr2:89390586-89390715
Coord A exon
chr2:89389632-89390585
Coord C2 exon
chr2:89389459-89389631
Length
954 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TCCCCTTCTTTTCTGTGCAGTTG
3' ss Score
10.28
Exon sequences
Seq C1 exon
AGGACGGTTCAGAAAAATGCAAAATATGTTTGCCTGGCAAACAAGAACTGTCCGGTGGACAAGAGACGCCGTAACAGATGTCAGTACTGCCGCTTTCAGAAGTGTCTCAGCGTCGGCATGGTGAAAGAAG
Seq A exon
GTGAGGGCTACTGCTATTATTATCCCGAATGCTGGAGCGCTACGTTTAACGAGCACGTGTGTGTGTGTGTCTGTGTGTGCGTGGGGAGGGGACGTAGATGTCTTTACTATGGACTTGGCAATTTTAGCTTCCTAGCGGCCCCCCAGATTCGTGCATCTGTGCAATAACACGTTGATTTTTTTTTTTTTCCTGTCGCCCAGTTGAGTGGGTTTATCGTGTTTAGACTTTCTGGGAGCCCGGAGTTCAAGGATCGCAAGGTCACAAGGGGATAATTTGACCCTGGCCAAAACGTGTCCTTTATGAACTTTAAATGCCATTCAATAATGCGGTTGGCTTCCACGCGTTATCTCGCAGCGTCGGTGTTCCGTTGTCCTGGGTGCCTTTTTGCATAGGATCTTGTCTCGTGGCCACGAGCTGATTGTAAATTTGCAATTAATTTAAATGGAAACTGGATCAACTCATTAGTCCCAGTTCTGCAAATATTTAAGTATGTGAGTAATACTGTGTGAGCAGTCCTATTGCAAATACTGACAGGGGAAATACAGCCTATATAGTGCGACCATATTTTTTGACCGCTTTGAGAAAGCTGAAGTTACTGTGAAAGAACAGCCCTGCCATATAGCAGGTGACATTTGTGTTTCACACTCTGTTTTCTTTCAGCAGTAGGGCTGTGTGTGTGCATATAGGGGCACATAGGCGTGCTGCAAACAAAGCACGAGCGCTAGGAACACAGCTGGGCTCCAAGGAAGCAGTTATTCTGCTGCTTACGGTCATGGTTTTAAGCGGTTTTGGTACCATTTGTGTTTCTTTGCAATCAAAGGCATCAACAGCATGTGCTGAAATTGGAGAATGCTCTTATTTTTGCTGGGCTGGCCATCGCAGGGGAAGCAGGTGCTCATGCTGCTCTGTCGTTTTACCGTGTCCTCACCACCGATCCCCTTCTTTTCTGTGCAG
Seq C2 exon
TTGTCCGCACGGACAGCCTGAAAGGGAGAAGAGGTCGGCTGCCTTCCAAACCAAAGAGCCCCCTGCAGCAGGAACCTTCGCAGCCCTCCCCGCCTTCTCCTCCCATCAGCATGATGAACGCCCTCGTACGAGCTTTAACCGACTCCACGCCCAGGGAGCTCGACTATTCACGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013568:ENSGALT00000022087:3
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=0.655
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=PD(58.6=93.2)
A:
NA
C2:
NO
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:
AGGACGGTTCAGAAAAATGCA
R:
TCGTGAATAGTCGAGCTCCCT
Band lengths:
303-1257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]