DreINT0117543 @ danRer10
Intron Retention
Gene
ENSDARG00000055113 | pom121
Description
POM121 transmembrane nucleoporin [Source:ZFIN;Acc:ZDB-GENE-030131-6557]
Coordinates
chr10:35239030-35239421:-
Coord C1 exon
chr10:35239257-35239421
Coord A exon
chr10:35239111-35239256
Coord C2 exon
chr10:35239030-35239110
Length
146 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGA
5' ss Score
8.55
3' ss Seq
AATTATCTTGGTTTCATTAGGCG
3' ss Score
5.56
Exon sequences
Seq C1 exon
CTTTAATCACCTGAACTCCCCTGGAGCCGTCACCTCTCCTGGGATTGGAGCACAGGCTGACCCCTGCTCCAGAGAGGCTGTCCTGAGCGTGCTCAGAGAGAGCAGGAAGAGAGAGGTTGATGAGGAGGACAAGAGTGCTTCCTCAGGGCAGAAGAGCAAAAGGAG
Seq A exon
GTATGAGATGGATAGAAAGTGACCAAATGGAAGTCAGTTTAGATCTGTTATCCTTTTAGAGTCAAACTTCTAGCTTGTCCTGTTGAACGTATCTACGAAATTGCAGTTGGTTTTTAAACGTCACCAAATTATCTTGGTTTCATTAG
Seq C2 exon
GCGACATGACAGCAGTGGAAGTTCTCAGTCAGCGTTTGAGCCTCTTCTTGCAAATGGAGCTCCGTCTCAGCTCGTGCCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055113:ENSDART00000127805:3
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=PU(9.9=42.9)
A:
NA
C2:
PF152291=POM121=FE(11.1=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:
AATCACCTGAACTCCCCTGGA
R:
TTTGGCACGAGCTGAGACG
Band lengths:
242-388
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]