DreINT0117549 @ danRer10
Intron Retention
Gene
ENSDARG00000055113 | pom121
Description
POM121 transmembrane nucleoporin [Source:ZFIN;Acc:ZDB-GENE-030131-6557]
Coordinates
chr10:35236361-35236959:-
Coord C1 exon
chr10:35236860-35236959
Coord A exon
chr10:35236772-35236859
Coord C2 exon
chr10:35236361-35236771
Length
88 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
3' ss Seq
ATTAATATTTTTTTTTCCAGAAC
3' ss Score
8.63
Exon sequences
Seq C1 exon
CCACCACCTCCTGAGGTTGGATATACAATCACAGTGAAAGATCTAGATATGGAGAAGAAAGCCGCTCTCAGCAAGATACAGAAAGTCCTGGAGGAGCCTG
Seq A exon
GTGAGATCTTTTAAATCCAGTTTGAATGGTTAGAGTTGCAACAAAATGAAATGCTTGCAGCTAAATCCATTAATATTTTTTTTTCCAG
Seq C2 exon
AACCGGAGATTCCTCCTCCAGCATCTGAACCTGCTCCTGCCCCAGTTTCAGCTCCCACTTTATCCCTGTTCTCTCAGCCAGCTCCAATCTCCACATCCGGGACAGCACCTGCTACGAGCGTTGTTCCCTCTCTGCTTTCTCTCTCCACACCCAAGCCTGAGACCACACCAGCTATTACTACAACTCCTGCTCCAACTATTGACCTAACCATCACTGCGTCCAGCACGGCCAGCTCTGCACCTCTAACCCTCATCTCATCCCCCGCCATCACTACCGCATCTCTAACAGCTGCCACAACTGTTTCAACTGCACCAGCTTCAAGCATTTCAAACCCCCTGCTGGAGTCTCTGAAAAACATGAAGAATAATCCTCTTCTCACTGCTCCGACTCTGATGGGCACTACCACTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055113:ENSDART00000127805:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.882 A=NA C2=0.688
Domain overlap (PFAM):
C1:
PF152291=POM121=PD(12.8=91.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAAGCCGCTCTCAGCAAGAT
R:
AAAGCAGAGAGGGAACAACGC
Band lengths:
182-270
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]