GgaINT1019974 @ galGal4
Intron Retention
Gene
ENSGALG00000012538 | NR4A2
Description
nuclear receptor subfamily 4, group A, member 2 [Source:HGNC Symbol;Acc:HGNC:7981]
Coordinates
chr7:35535302-35536596:-
Coord C1 exon
chr7:35536372-35536596
Coord A exon
chr7:35536168-35536371
Coord C2 exon
chr7:35535302-35536167
Length
204 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGT
5' ss Score
7.81
3' ss Seq
TGTCCCCGTTTCGTTTCCAGCCA
3' ss Score
10.68
Exon sequences
Seq C1 exon
GGGCCGGGAGGGGGGGAAGGGGGGTCGGCGCTTCTCTCTTTCGGTGCCGGCGACCCGAACGCCCGCGAGCGGCTGACGGGCGGCTCCGCGCGTGTGTTGCAGCGGGCGCACCGGGCAGGCTGGAGTCGCCCTCCGAGCGCTGACACCGCGGAAACTTCGCTCCCCGCCGCGTCCCGACGCTGTCCGCCTTTAGTTCCCTCGAAAACGCCTCCAACTCGCCTGAAG
Seq A exon
GTTTGTGAGCCCCGCGAGCCCGAGCGGCGGCGCGGGGCGGAGGTCGCGGTGCGGGGCCGGGATCCCGCAGCCGGGCGGGGGTCCCGCAGCCCCCGCGCCGTCCCGGGCGTTGCCGGCGCTGGGAGCGGGGCGGGGGAGCGGCGCGGGGCCGACGGAGGGCGCGGAGCCGCCCGGGCTGAGTGTGTGTCCCCGTTTCGTTTCCAG
Seq C2 exon
CCATGCCCTGTGTTCAGGCTCAGTATGGGTCCTCGCCTCAAGGAGCCAGCCCGGCCTCCCAGAGCTACAGTTACCACTCTTCAGGAGAATACAGCTCCGATTTCTTAACTCCGGAGTTTGTCAAGTTTAGCATGGACCTCACCAACACTGAAATCACTGCCACCACTTCTCTCCCCAGTTTCAGTACCTTTATGGACAACTACAACAGCAGCTACGACGTGAAGCCTCCTTGCTTGTACCAAATGCCCCTGTCCGGACAGCAGTCCTCCATTAAGGTGGAAGACATTCAGATGCACGGCTACCAGCAACACGGCCACCTGCCCCCCCAGCCCGACGACGTGATGGCCCATTCGGGCTCCGTCTACTACAAGCCCTCGTCGCCCCCGACCCCTTCCACGCCCGGCTTCCAGGTGCAGCACGGCCCCGTGTGGGACGACGCCGGCTCCCTGCACAACTTCCACCCCAACTACGTGGCCACCACGCACATGATCGAGCAGCGCAAAGCGCCCGTCTCCCGCCTCTCGCTCTTTTCCTTCAAGCAGTCCCCCCCCGGCACTCCCGTCTCCAGCTGCCAGATGCGCTTCGACGGGCCCCTCCACGTGCCCATGAACGCGGAGCCGGCAGGCCCCCACCACGGCGTGGACGGGCAGCCCTTCGCCGTGCCGAGCCCCATCCGCAAGCAGCCGGCCATGGCCTTCCCCGGGCTGCCGCTGGGCCACGCGCCGCAGCTGCTGGACAGCCAGGTGCCGTCGCCGCCCTCGCGGGGGTCCCCGTCCAACGAGGGGCTCTGCGCCGTCTGCGGGGACAACGCTGCCTGCCAGCACTACGGCGTGCGCACCTGCGAGGGCTGCAAGGGCTTCTTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012538:ENSGALT00000020478:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.476
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0010513=zf-C4=PU(38.6=9.4)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCGCCTTTAGTTCCCTCGAA
R:
CGGACAGGGGCATTTGGTAC
Band lengths:
298-502
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]