RnoINT0104355 @ rn6
Intron Retention
Gene
ENSRNOG00000023393 | Nup214
Description
nucleoporin 214 [Source:RGD Symbol;Acc:1304977]
Coordinates
chr3:11025553-11026827:+
Coord C1 exon
chr3:11025553-11025822
Coord A exon
chr3:11025823-11026665
Coord C2 exon
chr3:11026666-11026827
Length
843 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
AATTTTTCTTTTCATCTTAGTCT
3' ss Score
6.73
Exon sequences
Seq C1 exon
CCAGCCTGTCTCGGTCAGCCTTCCTGTCTCAGAGGTACTATGAAGACTTAGATGAAGGCAGCTCCGCGTCGTCCGTAGCTCACCCTCTGGAGGGAGAAGATGCCCGGCCGACGCCGACCTGCAGAGAGGAGGAGGCTGTGGTCCCAGTCCCTCGGCATGCCCCCGTGGTCCGCACACCTTCTGTCCAACCCAGTCTCCTGCCTCAGGCGATGCCTTTTGCAAAGCCTCACCTGATTCATAGTTCTTCACCTGCTGCGATGAGCTCTTCAA
Seq A exon
GTAAGTCGCCAGTTTGAACCTGCCCATGGAGGACTAGCTGGAGAGCTGCATGTCCCTGTCATAGTGTCACTCACTGAGGCCATCTGTATGGTGTGCTCACTGTGGCAGGGCGCTGTGAGGGCTGTGTGTCACAGTGACCTCTAGCAAAGACACAGAGTAAAGTACAGGAATGAAGCCATTTTACAGAACAGTTTTCTTCCCTGTTAGGTCTCTACTGAGGGGACTCACCAGGGCTTAGACTTCAGACCACTGAGTTCCCATTCATTTCTGCTAGTATACCAAAAATTAGAAGAACTGGTTCAAAAGGTATAGGTTCTCTTGAAGTGGTTGGTAAGGCTCCTATGAAATAAAAGCCTCTGAGGGTCCATACTATAACAGCTTAACTCCAGCATACATCCTCTTCGCTTTGTTAACATAGGTAAGGAGGGGTGTTTGCTCAGTGTAAAACATGTGTACTCATGTCCTCCCGTCAGCAGCTGTGGGGCATCTGGCTCAGCTCACCAGCTCCTGTGACCCATGTCATAGTCACTCTCTGGGGCCATCTGCATTGTGTGCTCACTGCTGCGGGACACGGTCAGGGCCTTGTGCCATAGTGACTTCTAGCAGACACACAGGAGTGAGGTACTGGGACAAATCTACTTTATAGGAAATCAGGTTCTATGTTGCTCTAAATGTTCTCTGTAACACTAAAAAAAAATTTGAAAATTTTGTTTAATTTTAATATAAAATTTTCAGATTTTAGCATCTTTTTTTTTTTTTTACAACCCAACAGAATTTACCATTTAAACTTTCCTATGTCCTTCAATGACCCCGTTTTTCTGATAATTTTTCTTTTCATCTTAG
Seq C2 exon
TCTCTACGTCAGCTACCAAAGTTATTCCTCAAGGAGCCGACACCACAATGCTGGCAACTAAAACGGTAAAGCATGGTGCACCAGGTCCTTCCCACACTGTCGCAGCTCCCCAGGCAGCGGCTGCTGCAGCCCTGAGACGGCAGATGGCCAGTCAGGCGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000023393:ENSRNOT00000037164:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.835 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGCCTTCCTGTCTCAGAGG
R:
GACCTGGTGCACCATGCTTTA
Band lengths:
343-1186
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]