RnoINT0104362 @ rn6
Intron Retention
Gene
ENSRNOG00000023393 | Nup214
Description
nucleoporin 214 [Source:RGD Symbol;Acc:1304977]
Coordinates
chr3:11043424-11047081:+
Coord C1 exon
chr3:11043424-11043482
Coord A exon
chr3:11043483-11045326
Coord C2 exon
chr3:11045327-11047081
Length
1844 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAG
5' ss Score
8.68
3' ss Seq
TGGTTTCTTTTTCTTGCTAGGGG
3' ss Score
8.62
Exon sequences
Seq C1 exon
GACCTTTACTTTTGGGACAATCACACCAGCCCCATCTTCTAGTTTCACTGCCACACCAG
Seq A exon
GTACAGTCCCGTGCTGCATTGGTGTTCATTCGTACTTCCCTCCTGGAAGAACCGCTGAATGGGAATGTGTAGGGTGGTACATTGTAACTTTGTAGTACAGTCAGGTTGGTAGTGATGATGTTTATCAGAGACACGAGAAAGGGCTGAGAGCGGCTTGGCAGGGCGCCTTCCCAGCACACAAACACCCTGGCTTGAATTCACAGCAGCAGAGCCACAGCAGTGTTTAACCCAGAGCTCGATATGGGGCTGCTGAGGGGGCTCAGTGCCCGGGCCAGCCCTGCCCTCTGCCTGCCACATTCTCTGTGACTTGCAAACACACACAAATAAAATATTTTAATGCAATAATTTTTAAAGAATCTGTTGTGAAGGAGATCTGTTTACATAACTATAAAAAGGGAAAAGACTTGCTTCTCAAAGCCTCGTTTGCTATAACATTCTAATGTTACATGCAAACTTGGTGGACAATATACCATGGAGGTAAAAGATCAAACCTGGTCCTAAACACTGGTCCACATACCTGTGCTAGGAATCCAGACCCACCCAAAAGAGAACAGTTTGTCAAGTTCCTCCCAGCTTTATCTAAGTAATTAAATATATTTTTGTTTTATTTTACTGTGGCATGTTTTTGTTAGGAAATTGTGGGATATAAAATGTACGATGGAGTTTCAAGTCACTCGGTAGCAGCTACTGCATTTGTGCTTTTCTTTGCAGAGTTTTGTCTTTACCTGGCTCTCATTAACTTCATGTCTTCTTGTCACCTTTGCTGGACTTGCTGACACAGGCTTGGAGTCTCAGCTACACAGAAGTTGAGATAGGAGGCTCTCAAATGTAAAGCCTGTCTAGACTACAGAGTTAGTCAAGGCCAGCTGGGGCAACTTAGCACTGGACTCCTCTAAATAAAATAGAAAGGACTGGAAGGTGGGTGTAGCTTTGGTACACTTGCTAGGCATAGGCAAGACCCTGTCTAGGGGTCAGGGAGTCATGCTAGTGACTCACGGTTCTCTCCCATGGCCTTGCTATGCTTTTATCGTCTGTCTACTCTTTTTAGTGTGTTTTTGGACTATGCATGTGATAAATAAGACATCCATCATCTTAGGTTTCTTAATCAACAAGCCTTTTCTATGTGTGTGCTGGGAATAGAACCTAATGCTTTGTATTTAACAAATCTTTTTTCAATTTTTTATTATGAGACATGGTGTCTCCTTTACTTTGAGAAGCAAGTCTTTAGGAAATAGTCAGGATAAGATGCAGTGATCCTACATTAACTCCGGATCAGTACAGCAGTGGGTGACAACCCAGTGCCGTAAGCAACATCACCAGTAATACAATGCCATGCTCAGTAAGGCCCTGGTAAACGCTTAATTGTAGTAGAAATTACCATCTACGGGTGACTCTGACCTTGAACAGTGAAGGGCTTCCAGTCTTGGTCCAATTGGGCTATGAGGATTGTTCATAGATTAGCTGGTGCCCACAGTGGGAGGGAAGCCATTGCCCAGGGCACTGTGTTGAGCGCAGCCTAGCAAGTAGCACAGGTAGGTGCTGTTGTACTTTTCTTTGGGGAAAATGTGTCCGTTTCATGTATCCTAGATGTCACGTGTTGTTGTGATATAGTGATCATAAACAAAATCTTCATTCCTTCCCCCTTGAGAGCTGACTCTGTCAGGGCTAACGCTTCTGTGCAGAGCAAGTGGCCAATCCACCCTTTGGAGAGAACCCTGCTGTTAGAGCCATAAGTCTCTTCCCTGACTGAAGAAAAAGATTGCCTTAGAGGGGCAGTCAGTGGAAGTGCAATGAATTCTATTCTGCTAAGTCCAACTCTTTTCCTGGTTTCTTTTTCTTGCTAG
Seq C2 exon
GGGCAGCACCCCCCACTAAAGAGTCAAACCAGCTTGAGGCGTTCTCATTTGGCGGGGGAGGCAAACCTTTTTGTGAGACCATTCCTGGAAACCCCCCTGCCACGGGACCCCCATCAGCACCCAGCACTTCTGTAACAACTACGTCTCTGGAAGACTCTGCTCCAACCAGCAGCAAACCTGCAACTCCTGAAACTCCTGTGTCCACTGCCTCTAGCAAATTGGAAACTCCACCATCCAAGTTAGGAGAGCTTCTCTTCCCAAGTTCTCTAGCTGGAGAGACGCTAGGGAGCTTCTCAGGACTGCGTGTTGGCCAGGCTGAGGAGTCTACAAAGCCCGTTAGTAAGGCCTCCTCCACAAACCTGGCCGGAGCCCAGCCAGCCAAGCCCTCAGGGTTTAGCTTTCCTGCTGCTTCCGTGTTAGGGAAGCCAGTGGAGCCCAGTGTGACGTCCTCTGCCCCAGCGGCACCAGTCTCAGCTCTGAGTGCGAGCACTAGCAGTTCCTCGGCAACTGTCTTTGGCAGTGTGCCCCTTACCAGTGCTGCACCTTCCGGGCTCATGAGTTTTAGTGGGGCCTCTTTGGCTAGTAGCAAAGCTAGTTTCTCATTTGGAAACCAACAGACTAGTAGTGCAGCAGCAGCAGCAGCTACCCCAGCATCCACCTCAGTTGCCCCTTCCCTTCCAGCATCTTTCCCTACTTTGTCATTTGGTGGCCTCCTGAGTTCACCATCAGCTTCTTCCCTGCCTGTGTCTTCTGGTAAGATCACAGAGGAGGCCACACCACCAGCTGTGCCTGACAAGTCAGACCACAGTGAAGTGTCAGCATCAACACCCTCACTTCCACTACAGCCACCGTCAGCCCAGCTTCCCCAGGCATCTCTGCAAACTTCTGACCCTGTCAAAAAAGAACCTGTTCCTGCGCAGACCACAGACAGCAGACCATCATCTTCTGCCAGCCTTGTGGCATCCACAGAATCCACTCCAGTCGCCCCAGGGGGCCCTGATAGCAAGACAGAAGCAGTGTCCCCTGCTTCCACCTTTGCAGGGCCTGGGCCGGCCGTGGTTGCAGCTGTTCTCCTAGGAGCAGGCTCGGCAGCCAGTGAAGCTTCCGGTACCCCTAGTACCTCCAGCACTGTCTCCAGCAGTACCCCAACTCCTGCCACAGAGACAGCTGTATTTGGGACTGCCACTTCTGGCTCCTCAGTCTTTACACAGCCGCCTGCTGCCAGTTCGAGCTCAGCATTCAACCAGCTCTCCAGTAACACGGCCACTGCACCCTCCGCCACCCCCGTGTTTGGGCAAGTGGCAGCCAGCATAGCCAGCACAGCCGCTGCCACGCCACAGGCCAGCAGTTCAGGATTTGGCAGCCCTGCGTTTGGTGCTTCGGCTCCTGGAGTGTTCGGACAGACAGCATTTGGGCAGTCCCCAGCCTTTGGGCAAGCAACAAGCAGCCCTGCGAGTGGCTTCTCCTTCAGCCAACCTGGGTTCAGCTCTGTCCCTGCTTTTGGCCAGTCTGTCTCCTCCACCCCCACATCCACCAGTGCCAATGTCTTCGGAGCCACCTCAAGTACCAGCAGCCCTGGTTCCTTCTCATTTGGACAGGCTTCTACCAATACAGGAGGGACGCTATTTGGCCAAAACAACCCTCCTGCTTTTGGTCAGAGCCCGGGCTTTGGGCAGGGAGGCTCTGTGTTTGGTAGCACCTCGGCCACTACCTCTACAGCAGCACCTTCAGGGTTTAGCTTTTGTCAAGCCTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000023393:ENSRNOT00000037164:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.557 A=NA C2=0.662
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCACACCAGCCCCATCTTCT
R:
GCAGTCCTGAGAAGCTCCCTA
Band lengths:
343-2187
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]