DreINT0107560 @ danRer10
Intron Retention
Gene
ENSDARG00000016212 | nup214
Description
nucleoporin 214 [Source:ZFIN;Acc:ZDB-GENE-110203-3]
Coordinates
chr5:71146658-71147097:+
Coord C1 exon
chr5:71146658-71146784
Coord A exon
chr5:71146785-71146938
Coord C2 exon
chr5:71146939-71147097
Length
154 bp
Sequences
Splice sites
5' ss Seq
TGTGTAGGA
5' ss Score
-2.9
3' ss Seq
GTGTGTTCTGTGCTCCTCAGCTG
3' ss Score
7.96
Exon sequences
Seq C1 exon
GTGAACTGGGAGCTGTGGCTGCTGGAAGACGCCAGTCGAGCGGAGCTTCCTGTCACGGAGAACAGCGAGGACACTCTTCCTGTGGGCGTGGCCATCGATTACACCAGCCAGGAGGACATTCAACTGT
Seq A exon
GTAGGAGCTGTGTGTGTGTGGTCACTAGTTGTGTGTGTGGTGGTTGTGTTTAGGGTGTGTCTGTGTGTGTTTAGTGCTGTCACTGGTTTTTTGTGAAGTTGTTGTTTGTGTGTGTGTGTGTGTAGTGATGTGCTGTGTGTTCTGTGCTCCTCAG
Seq C2 exon
CTGATGAGAAGAAGGTTCCTGCTGCACCGACGCTGCTGCTGCTCTCCACTGATGGAGTTCTGTGTCCGTTCTCTTTACTCAACCTGAACCCGGGAGTCAAACAGCTGAACGCCACTGCGGTACCACTGCCGCTGGACGGGGAACGAGCACCCGCCGCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016212:ENSDART00000115182:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.186 A=NA C2=0.352
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGAACTGGGAGCTGTGGC
R:
CAGTGGTACCGCAGTGGC
Band lengths:
255-409
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]