GgaINT0047299 @ galGal4
Intron Retention
Gene
ENSGALG00000012538 | NR4A2
Description
nuclear receptor subfamily 4, group A, member 2 [Source:HGNC Symbol;Acc:HGNC:7981]
Coordinates
chr7:35533694-35534522:-
Coord C1 exon
chr7:35534359-35534522
Coord A exon
chr7:35533897-35534358
Coord C2 exon
chr7:35533694-35533896
Length
462 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGC
5' ss Score
9.04
3' ss Seq
TTTTTAAAATGAATTTCCAGTTC
3' ss Score
6.01
Exon sequences
Seq C1 exon
TGGTTCGCACAGACAGCCTCAAAGGCCGGAGGGGTCGCTTGCCATCCAAACCGAAGAGCCCCCAGGAGCCCTCTCCCCCCTCTCCCCCGGTGAGTCTGATCAGTGCGCTGGTGAGAGCCCATGTCGACTCCAACCCGGCTATGACCAGCCTGGACTATTCCAGG
Seq A exon
GTAAGCTGGACCGAGCTCGCGTTGGGACCTTGCCGCGCCCTCCGCGCCCGGCACGCAGCGGCCGCCCGCAGCCCGCGGCCCGGAGCGCCTCGGCCCGGAGCGGCTCAGCCCGGAGCGGCTCAGCCCCAGCGCGTTGCGGCGGGCGGGCGGACGCTCCCCGGCCGCGCTCCGGGCGGCCCCAGCGCCGGCTGCGCCGCTCTCCTCGCGGGCCGGGCGGTCGTCCCCGCGGGGCGGCCCCGCGCTGAGCTGCGCGGAAGCGGCGATTTGCATATCGCAGGCGGCGACCTCGTCCTGCCGTTCCTAATGGAATTAATTGCCCCGGAACATCTAATTTCCTTAGTGGTCAGAGAGAGATTTAATTGTTAGAAAAACCCGGCTCCCCTCCTAGAAACGGGGTTAGCAATTTCACGGGTTATATACTTCGGAGAACCTCATTAAGTGCTTTTTAAAATGAATTTCCAG
Seq C2 exon
TTCCAGGCTAACCCCGACTACCAGATGAGCGGGGACGACACTCAGCACATCCAGCAGTTCTACGACCTGCTCACCGGCTCCATGGAGATCATCCGCGGCTGGGCAGAGAAGATCCCCGGCTTCACCGACCTGCCCAAAACCGACCAGGATCTGCTCTTCGAGTCCGCCTTCCTCGAGCTCTTCGTGCTGCGCCTGGCATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012538:ENSGALT00000020478:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.473 A=NA C2=0.015
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=PU(0.5=1.8)
A:
NA
C2:
PF0010425=Hormone_recep=FE(33.8=100)
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:
TTCGCACAGACAGCCTCAAAG
R:
GAAGAGCTCGAGGAAGGCGG
Band lengths:
344-806
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]