GgaINT0046059 @ galGal4
Intron Retention
Gene
ENSGALG00000009287 | ATF2
Description
Cyclic AMP-dependent transcription factor ATF-2 [Source:UniProtKB/Swiss-Prot;Acc:O93602]
Coordinates
chr7:16179665-16180031:+
Coord C1 exon
chr7:16179665-16179779
Coord A exon
chr7:16179780-16179944
Coord C2 exon
chr7:16179945-16180031
Length
165 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGT
5' ss Score
9.09
3' ss Seq
TTTATACTTTATCTGGTCAGCTT
3' ss Score
5.15
Exon sequences
Seq C1 exon
TCCAGTTCCAGGCCCGTTTCCTCTGCTGTTACATCTTCCTAATGGACAAACCATGCCTGTTGCTATTCCTGCATCTATTACAAATTCCAACGTGCATGTCCCTGCTGCAGTTCCA
Seq A exon
GTAAGTAAGCGTGATGTTATATTAATTTGAAAGTGTAGCAGGTTTGCATAAGTGCAGCATAGAACTTGAAACAGCTGTTTTGGTTTCAGAGGGTAGTGGTGTCATATAATCTGTATTATGATAACATACTCAGGCTTTCTTCATTTTTATACTTTATCTGGTCAG
Seq C2 exon
CTTGTTAGACCTGTCACCATGGTGCCTAGTATCCCAGGAATCCCAGGGCCTTCCTCCCCACAGCCAGTGCAGTCTGAGGCTAAATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009287:ENSGALT00000033263:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.923 A=NA C2=0.971
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAGTTCCAGGCCCGTTTC
R:
CAATTTAGCCTCAGACTGCACTG
Band lengths:
202-367
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]