HsaINT0115680 @ hg19
Intron Retention
Gene
ENSG00000116833 | NR5A2
Description
nuclear receptor subfamily 5, group A, member 2 [Source:HGNC Symbol;Acc:7984]
Coordinates
chr1:200008786-200013020:+
Coord C1 exon
chr1:200008786-200008923
Coord A exon
chr1:200008924-200012901
Coord C2 exon
chr1:200012902-200013020
Length
3978 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
CATTTCTCTTTTTGTTTCAGTGT
3' ss Score
10.65
Exon sequences
Seq C1 exon
GTGCTGGGCTTCCGGACCGACACGGATCCCCCATCCCCGCCCGCGGTCGCCTTGTCATGCTGCCCAAAGTGGAGACGGAAGCCCTGGGACTGGCTCGATCGCATGGGGAACAGGGCCAGATGCCGGAAAACATGCAAG
Seq A exon
GTAAGGAGGCGCCGCGCGGCGCTCCGGCTCCCGCTGCTTCCCCACCCCCGGGCTCGCCCTGCAGGCTTCAGCCTCCCGCCCCGCGCGGGCGCGGGAGTAGCCCCGCTGGGCGCTCGCAGCCGCGGGAGTCAAGCCCCCTCCCCAGGTGCAGGCATAAAAGTTTATGGCTCTTGAACAATGCGGGGCAGAGGTTTTTCCAAGCAACGTCTAATTGGCCGCTTCTAATTAAGGAAAGAGAGGCTTCCAGCTCTATGGCAACCCAAGCAGGGCAGCTTCAGGCTAAAGGTACTTTAGAATAATAAGATCATTCTAAGAAATGGAATGTCTCACTGGACACCCGAACAGGTTCTCTGTCATTGGAATTGGTGTGTACTGTACTTCAACCAGTACTCTTGTGTGGAGGGAGGCGACCCAGTCTAGGAAAGTCAACTACAGAAAGAGGTGACCTCCGAAAGGATTGTCTTAGCGCTATTAGAATACATGTGACCACACCAAAAGCCCAGGCGGACACCCGCAGCCAGCTCGGATTTGGACAATTCAACATTGCTGGCAGAACTGAAGGGAACAAGTTACCCCAACCCCATCCCCTGTACGCGTAGTGCTGAGTGAGTTGGGGGTGGGAGGACAGCGGTTCGTTTATTGCCCCCTTTTAAAATCTGAGATCTGAAAATATGGAGGTCCCATTCGTTTTCCCAGCTCTTGATTGCCAACAAAAAAACAAATCCCGCTGGCTACATTTTCTCCTCATTCCAAAATAGCAACCCTATGGCTTGTATTAAGCCCTTCAGAAGTTTATCTCATTTGCTCTGGGCCAGGGAGGGAACAATGCTAGGAAAAGTCACCGGTGCTCTTCCATCCTCGCCCCTTCCAGGGTGCAGGATGTGCGGGCCGGCGGGCCTGTGATCCCGGAACGCTTCCTGCCATCCCCTTGCGCGAACTTGAAAGGACTGGGAGGTGTTGAGAGCAGAGTTCAGGGCTGGTGCACTCTGCGGTGCTGAGTGGGCGGCGCGCCCGGGCGCTCAGGCCGGGGGACCTGTAGTCGCCCTACCGCGGAGGGGAAAATACGTAGCTGGAGGGCGTGCGCCGTGCGGGTTGTGATCCGTTACCCCATCGGTCATCCTGGGGTCTCCCCAAGCCTCTAGGTAGGGCTGTGAGAGTCCCCTAGAGCTGAAGCCCCGGAGGCTGACCTGTGGGTCTGGCTGCTATGGGAACCCGGTTGGTCCAAAGAAGCCTTTCTTCCGGGCACCTGGAATTCCAGTTTAGTGTGGGGCATCGGGGAAGTGGCGCTGGGGGGCTGGGTTGGGGGACCTCAGCCGGCAGCTCCGGAGAGGGCCTACCCTTGGGGTCGCTGGGTGAGGCCGGCACGATTCTTGGCTCCAAAAGGAAAGTTTCTGCTTCTTGTTCTGGCGCGAGAAGCCAAAGACTTATTTTGAGAGCGGAGAGAGAAATGTTATTGGTAACGTTTTCTTTGGAAAGTTCGAGAGGGGTCTTCTGGACACACTACCTAGTGCCCCCAAACCAGAGAAGTAGTTTTTCTTTGGTGCCTGGGCTCAGAAGTCGCCACTCACTCAGCCCATGGTTCGAAATCAGCATGGGAAGCGCCGGGGCAAGGCTTCGTCGGAGACTAGAGGCCTGCCTGTCGGGAGGAGCCCCTGGGGGATGGGGACCCCATTCTCCTGCTTGCTCTGGTTCCCACCTGGGACGCCTCCGTAGGAGCCCAGAAAGACGATCCACTACATGGTCCCGGGACAGAGCAGCGCGCCCAACTTTGAGGGAACTTTGTGCGCCTCTCTGAGGCCCTAGCTTTCCAAGGCACCGCCGTCCGTTCTTCTTTCCCTAGACCGAAACTGGGGAAGAGTGTGGGCGCTTCTTTGCCCCGATGAGTTCGCCTCCCCAAACGCCTACTTCGGCTGCACCAGAGCATCTGGGAAACTCTGAAAGGTGCCCAGGCCTCACACAGCAGCGTCTCCCTACTCAGCCTCTGTCTTTGGGTTTTTTCAAGAGAGTCTCTACCTCATGCCTCGGTCTTTCTTCGATGTCGGGTCCCCGAGGTAGGCACGGAGTCCCTCTGAAAGCAGTTGCCTATCTGTGCCCCTTTGGTGTAAAGTTAGAGTTTACTTTGTTGGGGGAAGGGGAGGTAGAAAAGATCACAGTTGGGAAAGTGCGCTTTTCGCCTTGTTCCTAAAACATGCCTCAAGACTGTCATCGCGATTGTTAGGAGAGCTATCAACGTCTAGGGGCTATAAAGGAATTTCTGAACCCTCGGCCCTTCCCAAACCCCCAGGTTCCTAAAACCCTAGTGGGGGTCTCTTGGGGCTGGGATTCAGGCTGGCACCGCTGGGAGGACCTCGCCTAGCATCCCTTTATTAATATTTCACGAAGGCAGGCTCCTGCCTTCTCTGGAGCCTCTTTTCTCGGAATGTTCCCAAACTCTGGCTAACTCACTCCCCTGTGAGCCATCCTAGGGCTCTGTGGCCCGGGAAGAGACGCGTCAACTCCGCGGGTCTGCGCGCAGTCCTTAGCCGCAAAGTGCTGCAAGTGACCCCCCTGACGGCCCTTTCCGACCGAAGAGCTCGGGAACCAAAGAGAAAAAAAATAACTTTATTTTCAAAAGAACAAGTCATCACTGCGGCGATACTGTGGCGGAGGACTTTGGCGATGGGGTGGGGGCTATTTCTCTTTCCTTTTTGGTAAACAAATCAGAGGAAACTTCTGCCCGGCCGTGGCTTTCCATCCCCCACCTGCCCCACCCCCTGCAAACGCCACTGATTAACTTAAAACAAACTCGGCTGCGTGTTTGTGCGCCGTTGGGTAGCAGGAGGTAGAGCCTAGGCGAGAGCCTGGTGCGCCCACGGGTTTCGCCGAAGAGTGCCCGGGGGAGTGCGGGCAGGGTCCCGGCTGCGCAGACCTGCGGGTGCCCGCCCACCCGCGCCCCGCGCTCCCATACTTGACCTGTGTGGATGTGGAGTCTCCGGGAAATACCGGATCAGGCACTTCCTGGGGTCTCCTGGTCACTGCCCTTCCTGTGCATAGTTTGTCATCTTTTTAGCTGCGAAGACGCCTTCGTGGGTCTGCGTCCGGAGCAAGGCGGTTACCCGATCCCGGCAGTGAGCCGCGCCGCGCGTCGTGGCGGCCTGATTTCTGTTTAACTTTAATAGGGCGATCTCGAGGTGTTTATATTTTGCTATGATGATCGGAAACATGTGAGGTTCATTACAGGGCTTCAATACTTTGAAACCAAAACCCTTCTGTGTGTCTTTTACTCTTCTGGTATTTTTCCCCGTACGGGCGTCCTCTATTTTCTTTTTCCTTCTTTTTATTTTCACAGATTTTCAAACGTAAGGAGATGAAAGTATCCAGAATAGAAAAGTACTGTCAATACGGAACTGAATGTTTCGATTATCTAACAGATCTGAAAGTTGGGAGCCTCAGGCTGTTTAGTTAAAGTGGGCTGCTGCTGAGAAGCGGGTTTCTGGGGCTTCAGTTTCTCTGTCGGACAGAGTTTGCAAATTGGTGCTGCTGTCCCTGTAAGCAAGGTGCACTTGCAGCAAACCACTTCAAGAGGGAGGGAATAAAGCCTGCGCTTGTTTCTCTACCTTAGGCGAAGGTGACATTTTGGAATTTAACTTCATAGGGATTTAAAAGAAATTCTAAACTGTCACCTTATGCAATTCATGTCTCTATTTGTTGCTTTGTGGAGTTATGAGACTTGTGTTTAAAAGCGGTCAGTTTAAAATGTTAACAAAAGAAGTTGGAATTGTTTGTGGCACATGGAATTATATGAGGTCCATGCTTATTGATGACAAAAGATGTTTTACTTGTAAAAATAGTTCAGTAAGACCTTGCTAAAAATTGTTTTTATTTTATATTTTACCATGTGATATTTGCCCAGCAATCACCAAAATGCTTTTTGTTGCAGGATTAACACCTACATGTAAATTAATTGAATATGTGTATACATTTCTCTTTTTGTTTCAG
Seq C2 exon
TGTCTCAATTTAAAATGGTGAATTACTCCTATGATGAAGATCTGGAAGAGCTTTGTCCCGTGTGTGGAGATAAAGTGTCTGGGTACCATTATGGGCTCCTCACCTGTGAAAGCTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000116833-NR5A2:NM_205860:2
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.631 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0010513=zf-C4=PU(32.9=57.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)