DreINT0034494 @ danRer10
Intron Retention
Gene
ENSDARG00000023903 | atf2
Description
activating transcription factor 2 [Source:ZFIN;Acc:ZDB-GENE-030911-8]
Coordinates
chr9:2350798-2351094:+
Coord C1 exon
chr9:2350798-2350894
Coord A exon
chr9:2350895-2350975
Coord C2 exon
chr9:2350976-2351094
Length
81 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TTTATGGGCTTCTATTGCAGACC
3' ss Score
8.84
Exon sequences
Seq C1 exon
CGATTCACAAATGAAGACCACCTGGCGGTGCATAAACACAAGCATGAGATGACCCTGAGGTTCGGACCGGCGCGCAGCGACAGCGTCATCATTGCTG
Seq A exon
GTGAGTCTGAGAGCACCCGGAGAAAATCAAACCAAGCTTTCATTATTCATGTATTTACAGCTTTATGGGCTTCTATTGCAG
Seq C2 exon
ACCAGACGCCGACACCGACCCGCTTCTTGAAGAACTGCGAAGAGGTGGGCCTGTTTAACGAGCTCACCAGCCCATTTGAGCATGACTTTAAAAAGGCCACGGAGGAGGACATTAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000023903:ENSDART00000135180:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.818 A=NA C2=0.375
Domain overlap (PFAM):
C1:
PF138941=zf-C2H2_4=PD(57.7=45.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAAATGAAGACCACCTGGCG
R:
ATGCTCAAATGGGCTGGTGAG
Band lengths:
174-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]