DreINT0106120 @ danRer10
Intron Retention
Gene
ENSDARG00000040926 | nr2f2
Description
nuclear receptor subfamily 2, group F, member 2 [Source:ZFIN;Acc:ZDB-GENE-990415-252]
Coordinates
chr18:23886448-23888838:-
Coord C1 exon
chr18:23888050-23888838
Coord A exon
chr18:23886976-23888049
Coord C2 exon
chr18:23886448-23886975
Length
1074 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTC
5' ss Score
6.8
3' ss Seq
AGTTTCTCTTTTTACTGCAGCCG
3' ss Score
7.52
Exon sequences
Seq C1 exon
TTTTTTTCCTTGATGGGTTTACTGGATGGATGACTGCAAGTGCCCCTGGACTTGGCCTCTAAGAGCAAGGCTGCTATTCGGCTTGCTTCAATTTTAACCACATGCCAGGTAACGCTATTTCAGTCAAGAAATAGACTACTGTTTCTCGTCGGTGCGCAACTTTGAACGGACATTCAGACTCTAACCGACCGTGCCGATCCTGAATTATTTATTTTACCCTCCTAAGTGATAGAGGCACCGTGCTGCGATATTATTTTTTTAAACAAAGCATTCCGAAACCAAAAACGGGGAACAAAAAGTTTTTTTAACGTTGACTGATAGATATGGCAATGGTAGTGTGGAGAGGCTCCCAGGACGATGTGGCCGAGACCCATGGCACCCTCTCATCGCAAACCCAAGGAGGACTATCCCTTCCGACCCCTCAACCAGGCCAGCTGGGTCTGACGGCCTCTCAGGTTGCCCCTCCGACCCCTCAGACACCCGTTCAAGGACCCCCGAACAACAATAACAACACACAGTCAACCCCGACGAACCAGACGACGCAGAGCCAGTCGGAAAAGCAGCAGCCACAGCATATAGAGTGCGTGGTTTGCGGGGACAAATCCAGCGGTAAACACTATGGCCAGTTCACTTGCGAGGGGTGCAAAAGCTTTTTCAAACGGAGCGTACGAAGGAACCTCACTTACACATGCCGTGCCAACAGGAATTGTCCCATTGACCAGCACCATCGCAATCAGTGTCAGTACTGCCGCCTCAAAAAATGCCTCAAAGTTGGCATGAGACGGGAAG
Seq A exon
GTATTCGGATTTTTGTTGTTTTACTGCTGTCTTTGTCTTTGTCTTCTGTATTTAGCCTGACTTAATCGCGCATGCTTCTTCCTGTATTTTATCCCCGACTCCTCTCTCTCAATCTGCCCGTCCACAGCATGCGAAGGAACCGCCTATAGCGCTCGAGACTGAGCGTTATCACGGCGCCCTTAATGCTCGAATAAAGAACACCCTCTCCTTAGCGACTATTTCGCATTGCACATGTTCGCAGCTTTAAACTAACCATTGCTTTTATTAGGCGACGAAAACATGGGTATTTGTCTTTATTTTTATAATCACTGCAGATATGCCGTGCGGTTATGGCGAGGGAGTATGGAGAAGCAGCGTCAAAATCACATATACACACACGCGCGCTCACATACACACACACTAAGCTAGGGACTCCAGATCGACCACAATCTACATCTCTCGCTTTTGCTCGAAAACTAGAGAATATTCACTGTTGGGCTTTTTTATTGATTTATTTCAATAAACGTTCCGCCAGACACCCAGTTCGCTCGCAAATTCTCAACAGACAGCTGAACTGACTCTGTCGCTAGCTAAATAGGTTAAGGGTTAGCATTCATGTCTTTCTTTGTGTATGTATTTACTAGACTCATGTTGTCTCAAAAACACAAAGCAGGCTAAAATGTGAAACATTTGCCAATATGTATTTTATTTATTTATTTGCTTTATTAAGTAAATCATATAATTTGGCTAAAATTATTTTGTGTAGTGTATGGTGCAGAACATTTTATGTGCATTTCAGTAAACTAGGTTGTTTATATACACGTTTTTATATATATATATATATATATATATATATATATATATATATATATATATATATATATATTTCACTAAACAGTACAACTATGGATGTCACTCTGAAAGGTTAAAAGTTCTGCACATGTCAAGTGACATATATGAATGCAATTGTTGTAGCAGCTACCTAGCAAACTGTGTGCTAACAACATGCCAAGTAAAGTAGAAAGAAGGTCAAGTTATGTGTTTTTTGTTGTAGAATTCAAGCATCAATATCTACAGTTTCTCTTTTTACTGCAG
Seq C2 exon
CCGTGCAAAGGGGACGAATGCCACCCACACAGCCACACCATGGTCAGTTCGCCTTGACAAATGGGGACCCACTGCACTGCCATTCCTACTTATCCGGATATATCTCTCTACTACTACGAGCGGAGCCCTACCCAACTTCTCGGTATGGCAGTCAATGCATGCAGCCCAACAACATCATGGGCATCGAGAACATTTGTGAACTGGCAGCCAGGATGCTGTTTAGTGCGGTAGAGTGGGCCAGGAATATTCCCTTCTTCCCAGACCTCCAAATCACCGACCAGGTTGCCCTTTTGAGGTTGACCTGGAGTGAGTTGTTTGTGCTTAACGCTGCTCAATGCTCCATGCCTCTCCATGTGGCTCCACTTCTGGCGGCGGCTGGGCTCCATGCCTCCCCCATGTCTGCGGACAGAGTGGTCGCCTTTATGGACCACATTAGGATCTTCCAAGAACAAGTAGAAAAGCTCAAAGCTTTGCACGTTGACTCTGCTGAATACAGTTGTTTAAAGGCCATCGTTTTATTCACTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000040926:ENSDART00000130163:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.481 A=NA C2=0.081
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=WD(100=44.9)
A:
NA
C2:
PF0010425=Hormone_recep=PU(67.3=72.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAACGGAGCGTACGAAGGAAC
R:
TGGCTGCCAGTTCACAAATGT
Band lengths:
343-1417
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]