DreINT0106152 @ danRer10
Intron Retention
Gene
ENSDARG00000044532 | nr4a2b
Description
nuclear receptor subfamily 4, group A, member 2b [Source:ZFIN;Acc:ZDB-GENE-040718-103]
Coordinates
chr6:12229508-12229901:+
Coord C1 exon
chr6:12229508-12229637
Coord A exon
chr6:12229638-12229737
Coord C2 exon
chr6:12229738-12229901
Length
100 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATG
5' ss Score
8.99
3' ss Seq
ATATTTATTATTTTTTACAGTTG
3' ss Score
7.53
Exon sequences
Seq C1 exon
CGCACGGTGCAGAAAAACGCCAAATACGTTTGTCTGGCGAACAAAAACTGTCCTGTGGACAAAAGACGGCGAAATCGATGCCAATATTGCCGTTTTCAAAAGTGCCTGGTCGTTGGGATGGTAAAGGAAG
Seq A exon
GTAATGAGCACTTTTTTGGTTTTGTTCACATCTCAGTTGTTTATTTGTAGTGAGAGTCCTGCAGTGTCTATAACCAGTATATATTTATTATTTTTTACAG
Seq C2 exon
TTGTCAGAACCGCCAGCTTAAAAGGTCGAAGAGGTCGCCTCCCCTCCAAACCTAAAAGTCCGCAGGATATCCCTGTCTCTTTCACACCCGTCAATCTCCTGAACGCACTAGTGAGAGCGCACATAGACTCCAACCCCTCCATGGCCCGTCTGGACTACTCTAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044532:ENSDART00000065385:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.226
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=PD(58.6=93.2)
A:
NA
C2:
NO
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:
CGGTGCAGAAAAACGCCAAAT
R:
TGGAGTCTATGTGCGCTCTCA
Band lengths:
258-358
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]