GgaINT0126699 @ galGal4
Intron Retention
Gene
ENSGALG00000001073 | NR6A1
Description
nuclear receptor subfamily 6, group A, member 1 [Source:HGNC Symbol;Acc:HGNC:7985]
Coordinates
chr17:9453953-9455916:-
Coord C1 exon
chr17:9455764-9455916
Coord A exon
chr17:9454761-9455763
Coord C2 exon
chr17:9453953-9454760
Length
1003 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
TCTGATCTTTTTCTCAACAGGAA
3' ss Score
11.89
Exon sequences
Seq C1 exon
ACATTAGGGGTTTAACCAATGCATCCCAACTGGAGCAGCTGAATAAGCGGTACTGGTATGTTTGCCAGGACTTCACAGAGTACAAATACCCACACCAGCCAAACCGTTTTCCGGATTTAATGATGTGTTTGCCGGAGATACGATATATTGCAG
Seq A exon
GTAACTTCTAAGCTCTTCTCCCACTTCCATCATTTGCAAATGATGAAATCTGCTTTTGAAAAGAAGTTAACACATGAGAACGGAATCCCTGCTCACGTTGCTGGAGGGTGTTCGTGTGAGACCTCCTTCTGTTCAGGCTGCTCCCCTGGCTTTGAGGCAGTCTCTGCCACCCCCAGGTCACACAGCCAGGCCAACTCCTTGACACGTTGTCCCCGTTGTGCCAGGCACATGTGCTGTGTGCTCCTGTTGGCTGCTCCCAAGGAGTTAGGCCTCACCCCTGAAGTGCCCCCTTCCAGCGTTTCACTCAGAGTCATTTTATTTTCTTCCCTCCTGTCCTGGCTCAGAGGCATTTTGTCTCAAGCAGCACCAAGGTGTGGTCCTGGTGTGAGTTGCTTGAGGGGGCAGGGAAATCCCCACACACTGCCTGGGGCACTCAGTGAGCAGGGCGGCTGCAGGCCTGCAGGTAAGCCCTGCCTCGGCTGCTCCGGGCCTCAGCACCTCTGAGACATGCAGGTGAAGTTAGTAGTTCGGTTGTGTCGCTAATTAGATTTGCAGGGTCTGGTGTTATTAAGACGTCGTTTGTTCCCAGATGTTATGGTAAAGGAAGATACTTGTCTCCTTGTGTCAAGGCTCAGTGTGCTTCGTCCTACCGTGCTGTAACAAACCAGATAATAATCACATAATAGCTCACATAATTTACTCACTGAGATCAACAAGGGAGTTTGAGGAGAGACAGGATTTAGTCTTTCCCAGTTTCTATAAATACTGCTCCATTGTGGAGAAATCATTTTGATCTGACTTTGCCCATTTATTTAGCTTTCATTTCAGTAAATAATAAATCCTGTTGTGCCCAAATGGGTATCGAATGTCTAATGTAGCCGTAGGATGATTAACTGTTTCTCTGAGAGGTTCAAGGTAAAACCGTCATCAGTGGAGCTGGCTTAGGTGTCTCTCGGAAATCTGATTCAGGAATGGCTGCTAATTCTGATCTTTTTCTCAACAG
Seq C2 exon
GAAAGATGGTGAATGTCCCGCTGGAGCAGCTGCCGCTCCTTTTTAAGGCCGTTCTGCATTCCTGCAAGACAAGTGTGAGCAAAGAGTGAGCCCAGCTTGCCCCCGGCCCGTGCCTTACTCTGTGCCTCAGGCAGGGAGCGGGCTCACCTCCAGAGGATGGGGGAAACATGATCAAGGCAGGAGGGAAGTGCTGAGACTGGCAGCGGGTGTCCCTGCCATTGTAGCAAGAGTCTTTTGTTTGTTTTTTGTTTTGTTTTGTTTTTTTTTTTACTCTTTTTCCTTATATATTTATTTCACGACAGAGTTGAATGTATGATCTTCAACACGATGCACATGGTTCTGTATGAATGCAGCAGATGCATTCTCCAGCAGTTTACAGAATGTGAAGATGTTTAAAGTTGCAGTGTTTGTTAGGGTTAGTTCTTTTGTATTTTGGGGCTGGGGACTGAGATGATTAAGACTACCTCAAGGAGAAGATGCTGTTCGCACACTGCTCTTTTCATGATTTGTATCCAGAAGTGTTTGTCATAGAATGCAAACTGCCTCACCTCATTGACAGAGCTGTCAGTATCCCAAATGGACATTTTTGGAAAAGGGGGTGTTAGAGAAGTGCCAAGCTTTTTCTGTTTGTTTAAAACCTAAAAAAAAAACCCTAAAAAAAAAAAAACCCTAAAAAAAAACCTTAAAGAAAAAAAGAGCTAAAAAAAGAAAAGACAGGGAGCGGAGAAGAAGGGAAGAAGGGAAAGTCTGTCTGGCCAGTAGGTTTCCTTTCCTCCAGCAGTTTCCAGGTGCAGGTGGTATTGCCTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001073:ENSGALT00000001607:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=FE(25.5=100)
A:
NA
C2:
PF0010425=Hormone_recep=PD(8.5=56.7)
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:
TCCCAACTGGAGCAGCTGAAT
R:
TTGCTACAATGGCAGGGACAC
Band lengths:
357-1360
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]