DreINT0106118 @ danRer10
Intron Retention
Gene
ENSDARG00000017168 | nr2f1b
Description
nuclear receptor subfamily 2, group F, member 1b [Source:ZFIN;Acc:ZDB-GENE-040426-1438]
Coordinates
chr10:43950333-43953454:+
Coord C1 exon
chr10:43950333-43951004
Coord A exon
chr10:43951005-43952926
Coord C2 exon
chr10:43952927-43953454
Length
1922 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
ATCTCTCTGTGTTCTGATAGCGG
3' ss Score
7.72
Exon sequences
Seq C1 exon
GACCACCAGTGAAGCGCGCGCGTGAGAAGAACACAGAGTAAAAGTGCGGTCATGTACATCTCCATCATGCCGAAAAGAGTTGAGTTTTCACGGATGCTCCAAATAAATCTGTTATAGTCAGCAATCCTCCACTCATGCTCCTGTCAATCATGCCGACAGCGCGGTATCTGTACTCCCATTGGATCTGATTCATCTGGGGTTTCCGATCGTCCCTTTTACGCACGGAGTTGCTTCAAATCGCGCGTTTAGGGAAATGCGTGGATAAAACCGGCTTTCTTGGTTAATTCGCGTAAAAGATTCCAGCCATGGCCATGGTGGTGAGCGCGTGGAGAGATCCGCAGGAGGAGCTGGCAGCGGTGGATGATCAGAGCGCGGCCGGGAGAGAGCACCTCCAGCACCGGCACTCGCCGAAGTCCGCGGAGGAAAAAGCGCAGATCGCGGCGCAAAACCAGCAGCACGTCGAGTGTGTGGTGTGCGGGGATAAATCCAGCGGGAAGCACTACGGACAGTTCACCTGCGAGGGATGCAAAAGTTTCTTCAAGCGAAGTGTCCGGCGGAATTTATCGTACACGTGCCGCGCCAACAGAAACTGCCCGGTGGATCAGCACCACCGCAACCAGTGCCAGTACTGCCGCCTGAAGAAGTGCCTGAAAGTGGGCATGAGACGCGAAG
Seq A exon
GTGAGTACATCTTGTGTGGGGGAAATCTGCATTTATGCAACCTGCGATAATTACTGATTGTGTCATAAAATGGTAGAAATAAATAAAAATAAGCGGATGATTTTCAATCAATATTTACAATGATTTATTTGCAAACATTTTAATTTTTAAATACCTAAACTTATTCATCATACTTGGAAAAAAATATTATAGTAATTTGTAGTTAGTCTTTTGAATTATGGGAAAGTACTTGAATTAATAAGGTTTGGTTGTTCTATAGTTGGTTACAACAACTGTTGTAAAATAAACAAGACAATGCTGTATTTTTTTTAGAAATATAAAAAAATATTGTACTAGCAAAAAAAATTACATTAGTAAACACTGATATTATGTATTTAATTATTCTATACTCAATTCTATGCTGCAGTCAGGGGCGGATTTAACCAATAAGCGAGGTAAGCAGCAGCTTAGGGCCCAAGGAAATCTGGGAGCCCCCAATAAATATCTAAAGTTAAAAATTATACCTATAAACTAAATATAACGTTGTTTTCTACCATATTTTTTATGTTGAGAGTAAACTAATACAATTATAACGTAATTAAATATTTAGTATACAATCAAATATACGTTAATAGTATTATATTAATGTATTGTTATGTAATAATAATAATATTACCAAATAAAATATCCATCATGGAGCAAAATTTATATTTAAAAAATATTATTTTTAGTTGTAAATTCATTTTAAGAAAATTAATCACTTATAATGGCATTGCATTAATTTAAAATGTCGAAAAAAATTATTGAGAGGAATAAAAAAAAAAAACAGCAATATAAATAAAAAATTAAATAAAAGCAGAGAGGGTGCATTTCAGGACTTTAGCCCATGCTGGAATTGCTTTGGGCCTCAAAATCACTAAATCCCCCCTGGCTGCAGCATACATTTGAGTGTTGTAAATACTATAATATATGCAGCAAAATACACTTTAGTAGGTTAAATATAATACGCTATAGTAGGTTAAATTACTAGCATTTTTCATGTGTGACACATCTTATGGAACAACATTATAGCTTATACAACTTGAAGCTCAAGTCAATTAAAAAATGTATTAAAAACGTTTCTATAAAAATTATATTTTAATTATTTTCAGACAGCATTGTTGATATAAAGCATTACAGGAGCTTTCTTTCAACGTCTTGAATGATCTTATCATGTTCAACTAATTTTACACTTGCAGATAAGGTGTAAACAGAGTGATTTAGCAGATAATACTACAAGACAGTAGATAATATTGCACATTTATTAACCTTTTTGATATTTAATAATAAGTTTAAATGTTCAGATAATGCATCAAACATTATAAGAGAGCATTAGAATGCACTTCCCTTCAGTCTTGTTTTCATATAACATATTACACTTGTAATTAATGGGTAGAGACAGATAATATATGCAGATGAGAGATCAAATTAAATGTAGTCTGCATGCACATTTCTTTCAATATTTAATAACAGATTTCATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGAGTAAATTTTGTTTGTATTGTCTTTTCAATAATTAATATCATATTTCGTGTAAAAATGCATTCTTTCGTCTTTGTTTTCAGAAACTTGCAATTAAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATATTGTTTGTATATGTATGCACATTTCTTCTCCATCTCTCTGTGTTCTGATAG
Seq C2 exon
CGGTTCAGCGAGGCAGAATGCCACCGAACCAGCCGAACCCGAGCCATTACGCGCTGACCAACGGAGATCACCTGAACGGCCAGTGCTATTTATCCGGATACATATCGCTTCTCCTCCGGGCCGAGCCCTATCCAGCCTCGAGATACGGCAACCAGTGCATGCAGTCCGGCAACATCATGGGCATAGAGAACATCTGCGAGCTGGCGGCCCGTCTGCTCTTCAGCGCGGTGGAGTGGGCCAGGAACATCCCGTTCTTCCCCGATCTGCAAATCACGGATCAGGTGTCTCTGCTCAGACTCACCTGGAGCGAGTTGTTCGTGCTGAACGCCGCGCAGAGCTCTATGCCGCTGCACGTGGCCCCTCTGCTGGCCGCCGCAGGCCTGCACGCGTCGCCGATGTCCGCGGACCGAGTCGTGGCCTTCATGGATCATATTCGCTTCTTCCAGGAGCAGGTGGAGAAACTGAAGGCCCTGCAGGTGGACTCCGCCGAATACAGCTGTGCCAAAGCCATAGTGCTGTTCACCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000017168:ENSDART00000027242:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.244 A=NA C2=0.090
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=WD(100=56.9)
A:
NA
C2:
PF0010425=Hormone_recep=PU(67.3=74.6)
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:
CAGTACTGCCGCCTGAAGAAG
R:
CCAGGTGAGTCTGAGCAGAGA
Band lengths:
354-2276
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]