GgaINT0002393 @ galGal3
Intron Retention
Gene
ENSGALG00000022619 | ZNF541
Description
NA
Coordinates
chrUn_random:731958-732367:-
Coord C1 exon
chrUn_random:732304-732367
Coord A exon
chrUn_random:732098-732303
Coord C2 exon
chrUn_random:731958-732097
Length
206 bp
Sequences
Splice sites
5' ss Seq
GCCGTGAGT
5' ss Score
8.56
3' ss Seq
CCCCCCTCTTTCTCCTTCAGCCA
3' ss Score
10.61
Exon sequences
Seq C1 exon
ACAGAATGGACCAAGACTTCGGGCTGTGCCTCATGAAGGACGGCACCAAAATCAGCATTGAGCC
Seq A exon
GTGAGTTATAACGCAGCAGTGAGAAATGATGGGGAAACGCACCCTGAGTGTGGGCCCCCTTCTTCCCCAGCCCCACTGCGGCCCCATAGCCCGCCCCATTCCCTGCTCTGCAGCTCAGGGCAGCAGGCCGTCCCCTTTTCTCTCTGTTTATGGGATGCATCCACTCCAGCTCATCCCCCTCACTCCCCCCCCTCTTTCTCCTTCAG
Seq C2 exon
CCACATTAACATTGGGAGCCGCTTTCAGGCTGAGATCCCGACCCTCCAGGACAGACCAGGCTTAGGAAGCGCAGAGCAGGCGGCCTTAGTGTGGAAGCCATGGGGAGACATCGCAACCAACGAGGAGACGCAGGACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000022619:ENSGALT00000036197:6
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=0.167
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0144819=ELM2=PU(81.8=93.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGAATGGACCAAGACTTCGG
R:
CTCTGTCCTGCGTCTCCTCG
Band lengths:
204-410
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]