RnoINT0104372 @ rn6
Intron Retention
Gene
ENSRNOG00000023393 | Nup214
Description
nucleoporin 214 [Source:RGD Symbol;Acc:1304977]
Coordinates
chr3:11005493-11007150:+
Coord C1 exon
chr3:11005493-11005952
Coord A exon
chr3:11005953-11006974
Coord C2 exon
chr3:11006975-11007150
Length
1022 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
AGCCGCATTTCCGCTTCTAGGTT
3' ss Score
8.87
Exon sequences
Seq C1 exon
GAAGTTTTCCTAGTACACCACCTTCCCCTCAAGCTCCACAGAACCTTGACGCTCCAGCAACAGCCTCTTCGCCTCTTCCACCGGTGTCTGCTGCTCCCACCGCCACCTTCCCTTTGCCGTCTGCTGGAGGAGGCCCTTCTGTGTTCTCCTTTGGCCCTTCACCCTTCAAGTCCTCCTCCATCCCCGGGGAGCCCCCGCCATACCCCACTGGCTCTGACAGTTCCAGAGCAGCACCAGCCTCTGGCACCCCCACCTTCTCTTTTGCGCCTCCTTCCAAAGGCACCTTGGCCCCGACCCCTGCAGTGGCTCCTGTGCCCACATCTGCTGCTCCCTTCACTTTCGGATCATCAGGTTTTAAGCCCCCCTTGGAAAGCACACCTATGTCCAGTGCCCCAAACACAGGGATGAAGCCTTCATTCCCACCCTCAACTTCTTCGGTGAAAGTCAACCTGAACGAGAA
Seq A exon
GTAAGTCACCTTGAAAGACTGACTCCTCGGTAGACTGGGCCTCATAGTGCATGGTGGTCACTGAGCTAGCGTCACTCAAGTACAGTGCACAAAGTAGTTATGTCCCTTTCTTAGACTATAAAGATAGCAGTCTTCCTTATTTTACAAAGGGCAACAGCCCAGAGCATTCATCCAGGGAAGGAAATGGGTCTTTTGTAGCTTTTTCCTCCTCAGCTACTCTTGACACTCAGCTGGTTCTGTGCAGCCACCAAGGTGACTTGAATAGTTAGGGATACTTGAGGTGACGCTCCTGCTTGATGGTCCCCAAAGGTTTCTTGTTACGTTTCTTTACAATTCAAACCTTTTAGCGTGGTATCTGGTTTCCTCCACATTAGTTCCAGTCACCCTGCTCATCCCTTATTTATTTACCTCTTGATCTTTTTTTCTGTTCTCCCCACCACACTGAGCATCTAGAGGGAATGTTCCCCTGTATCGTGCAGCCTTTTCCAGTTGGAGCAAGTGTCAAAACCATGTTTTGGGGCCTCATTGCCAGGATGTCGTCCTATAGGCACACTGTCATTGCTCAGATTACATCCACACGTGGCTACTTCACACTAGCCACTTTTGGTATTCCATTTTGTTGGGCTGTCCATTTTTCACCGGAGCTTGTCTGCAGACCTTGCTTTGGTGGAGGTGACTTGACAGTCTTTCTAGACCATGATATCCCAGAGACAGCGACTCCCTGCCCTGAAACGATAATTCTCAGAACAAGGGCTCATGCTTTGTTGCGCCACCCCCTTAAAACAAAACACACACGCAAACCCATGTGACAGGGTAGAAAGTAGATCCTCCTACACTAAGTGCTTTGGCTGTGCTGTAGGTGGTGAGTAGATGTGATTGTGCCCTCCCATGAGTAAGCAGCATGAGTGCTGCTCTGAAAGTAGAGGAGACGGCCAGTCAGATTTTCTTGGCTCTCACTGCTCAGGCCCAGTGGGAAGGAACCCTCCAGCAGAGTGTTGTGACAGCCGCATTTCCGCTTCTAG
Seq C2 exon
GTTCACCGCTGTGGCCTCCTCTGCACCCGTTCATAGCTCCACAAGCATACCCTCCGTGTTGCCGTTCTCTTCCTCCCCCAAGCCACCAGCTTCTGGACCACTCAGCCATCCCACGCCTCTCCCAGCATCACCCAGCTCCATGCCTTTGAAACCTTCAGTCTCTCCCTCTCCGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000023393:ENSRNOT00000037164:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.942 A=NA C2=0.988
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:
TTCTCTTTTGCGCCTCCTTCC
R:
TTTCAAAGGCATGGAGCTGGG
Band lengths:
357-1379
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]