DreINT0117545 @ danRer10
Intron Retention
Gene
ENSDARG00000055113 | pom121
Description
POM121 transmembrane nucleoporin [Source:ZFIN;Acc:ZDB-GENE-030131-6557]
Coordinates
chr10:35238387-35238804:-
Coord C1 exon
chr10:35238630-35238804
Coord A exon
chr10:35238479-35238629
Coord C2 exon
chr10:35238387-35238478
Length
151 bp
Sequences
Splice sites
5' ss Seq
CAGGTATCC
5' ss Score
7.91
3' ss Seq
CCTTGATTTTGTATATCCAGAGA
3' ss Score
5.12
Exon sequences
Seq C1 exon
ACCTGGCAGTCTGAAGAGAGGCATGAACTCTTCTCTCATTGAAGAGTCCATCATGAAGCGGTCTCGCACCTCCTCTGTCAGCTCTATAAGTGGTGCTCCTGTTCCCAGTGGTGTACCTGGATCTGTCCGAAATCCCATTCGCAGTTCCTACAGCTCCTCACAGGGTTATCCACAG
Seq A exon
GTATCCACTTTTATCCTTATAGGCAAGCTATAAAAAGTTAGTGATGTAAATTTGAGAAAATGTAACAAGAAATATAGTAATTGTCATGTTAAGAACATATTGACGTTGTTTTGCATTCATTCACTCTGTTCCCTTGATTTTGTATATCCAG
Seq C2 exon
AGACGAGCAGCATCCAGTCTCAGTCTTTCTCCCTTCACAAGCCCAGGAGGATCTCGGTGTCAGACTCCAGAGCGAGCTGCCAAGAAAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055113:ENSDART00000127805:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF152291=POM121=FE(23.9=100)
A:
NA
C2:
PF152291=POM121=FE(12.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTGGCAGTCTGAAGAGAGG
R:
TGGAGTCTGACACCGAGATCC
Band lengths:
244-395
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]