DreINT0107591 @ danRer10
Intron Retention
Gene
ENSDARG00000016212 | nup214
Description
nucleoporin 214 [Source:ZFIN;Acc:ZDB-GENE-110203-3]
Coordinates
chr5:71182770-71184191:+
Coord C1 exon
chr5:71182770-71182941
Coord A exon
chr5:71182942-71184118
Coord C2 exon
chr5:71184119-71184191
Length
1177 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGA
5' ss Score
7.62
3' ss Seq
GTGTGTGTGTGTGTGTGCAGCTT
3' ss Score
8.96
Exon sequences
Seq C1 exon
CTGGTTTTGGCACTGCTCCGGTGTTCGGCAGTCCTCCAACATTCGGTGGTTCTCCAGCGTTCGGTGGGACTCCAGCGTTCGGCTCGGCTCCGGCCTTCAGCAGCCCACAGAGCGGCTCCTCAGGGAAGGTGTTTGGGGAGGGAACCACAGCGTCCAACATGGGCGGATTCGG
Seq A exon
GTGAGACACACTGCTGATGCAGAATGAATCAACACAAGCATCAGTTCACATTCATCATATGCAAATGAGCCAATACCTCATTTAAAATTCACTCATTTGCATATAAATCCAAAATAGAAATGTAAGCGTTGGACCAGTTCAGAACTCAGCTTTATTTCATCACTCTGGGTTTTGGATATCTTGTTTTAAACTCCAAAATCAGACAAATTAGCATGTTAAATGTGCTGTCGCACTGTGGCCTCACAGCAAGAAGGTCTCTGGTTTGAGTCCCGGCTGGGCCAGTTGGTGTTTCTGTGTGGAGTTTGCATGTTCTCCCCGTGTTGGTGTGGGTTTCCTCCAGGTGCTCCGGTTTCCACAGTCCAAACACATGCGCTATAGGGGAACTGATCAACTAAACTGACCGTAGTGTGTGTGTGCGTGTGTGTGTGTGTGTGTGTGTGAATGAATGAATGAATGTGTATGGGTGTTTCCCAGTGATGGGTTGCAGATGGAAAGGCAACCGCTGTTTAAAACATATCTTGGAATAGTTGGCGGTTCATTCCACTGTGGCGACCTCTGATTAATAAAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAATGAATGAATGTGTATGGGTGTTTCCCAGTGATGGGTTGCAGATGGAAGGGCATCCGCTGTGTAAAACATATCCTGGAATAGTTGGCGGTTCATTCCACTGTGGCGACCTCTGATTAATAAAGGGACTAAGCTGAAAAGAAAAGATCTGCAGGGGAACGATGATTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTCAGAGCAGTATTCCTCTGTTGGTGTGATTGGAGTCCTGATTCGATCAGAGGAGATTGTGCTGACATCTGTGACTGTACGGGGAATTAAATGTTGGATTATTGTCATTTTCATCTGGAGCAGCAGATCACGTGTGCGTCTGTCAGAAATGATGGAGGATGTAGGTTANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCTTCACCTGTGCAGATCTGCATAACACACACTAATATCCCTCCTGCATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCAG
Seq C2 exon
CTTCGCTTCTCCAAGTGCTCCATCATTCGGCAGTCTGGCCAATCAGGGTGCAGGAGCGAGCTTCGGGAGTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016212:ENSDART00000115182:44
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.552 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGTTTTGGCACTGCTCCG
R:
AGACTCCCGAAGCTCGCTC
Band lengths:
244-1421
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]