DreINT0106131 @ danRer10
Intron Retention
Gene
ENSDARG00000003165 | nr2f6b
Description
nuclear receptor subfamily 2, group F, member 6b [Source:ZFIN;Acc:ZDB-GENE-040426-2351]
Coordinates
chr11:6126745-6127564:+
Coord C1 exon
chr11:6126745-6126839
Coord A exon
chr11:6126840-6126988
Coord C2 exon
chr11:6126989-6127564
Length
149 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGC
5' ss Score
7.09
3' ss Seq
CCGCCCTCTTTTTTTTCCAGCTG
3' ss Score
10.41
Exon sequences
Seq C1 exon
ATCAAACAGAGAATGTCAGATTGATCAGCATCACCGTAACCAGTGTCAGTACTGCCGTCTGAAGAAGTGCTTCCGGGTCGGTATGAGGAAAGAAG
Seq A exon
GTCAGCAAACCCCTAGTAAACCATTTATGTATATTATAATATTTATATCTATTTTTTATAACTCTGATAGTGTAATTTTACTTGCATTATTCAAAACGAGATTTGTTTGGATCATTATACTGAGTTTTCCCGCCCTCTTTTTTTTCCAG
Seq C2 exon
CTGTTCAGCGTGGCCGAATTCCTCCATCCCACGCAGGCATCAGCCCAGCCTCCATGGTAGGAGCAGGTGGTGATGTTGGAGGAGGTCCGGGCATGGGTGCTGATTTTTTTAATGGTCAGCCAGTGTCTGAACTCATCTCTCAACTACTGAGAGCAGAGCCGTACCCCAACAGCCGTTATGGAGCCCAGTGTGGCCAGCAGCTCCAAGGCGCCAACAGCTCCATGATGGGCATTGACAATATATGTGAGCTTGCAGCCCGGCTGCTGTTCAGCACTATTGAGTGGGCCAGGAATATTCCCTATTTTCCTGACCTGCCAGTGTCAGAGCAGGTGGCCCTTCTGAGGCTCAGCTGGAGTGAACTGTTTATCCTGAATGCAGCTCAGTCGGCGCTGCCCCTGCACACGGCCCCTCTGCTGGCAGCTGCAGGGTTTCACTCCTCCCCTATGCCCGCTGATCGCGTCGTGTCCTTCATGGACCAGGTGCGGGTCTTTCAGGACCAGGTGGACAAGCTGACACGACTGCAGGTGGATTCTGTTGAATACAGCTGTCTGAAAGCCATCGCTCTGTTCTCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000003165:ENSDART00000027666:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.010 A=NA C2=0.061
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=PD(42.9=90.9)
A:
NA
C2:
PF0010425=Hormone_recep=PU(66.3=65.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGGGTCGGTATGAGGAAAGA
R:
ATGCCCATCATGGAGCTGTTG
Band lengths:
255-404
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]