DmeINT0024033 @ dm6
Intron Retention
Gene
FBgn0010660 | Nup214
Description
The gene Nucleoporin 214kD is referred to in FlyBase by the symbol DmelNup214 (CG3820, FBgn0010660). It is a protein_coding_gene from Dmel. It has 2 annotated transcripts and 2 polypeptides (1 unique). Gene sequence location is 2R:22918937..22924742. Its molecular function is described by: structural constituent of nuclear pore; nuclear localization sequence binding; protein binding. It is involved in the biological process described with: positive regulation of RNA export from nucleus; protein localization to nuclear pore; protein import into nucleus; RNA export from nucleus; negative regulation of protein export from nucleus. 6 alleles are reported. No phenotypic data is available. The phenotypic classes of alleles include: lethal - all die during P-stage; lethal; viable; some die during pupal stage; lethal - all die before end of pupal stage. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of low expression. Peak expression observed within 00-06 hour embryonic stages.
Coordinates
chr2R:22920746-22922339:-
Coord C1 exon
chr2R:22921998-22922339
Coord A exon
chr2R:22921942-22921997
Coord C2 exon
chr2R:22920746-22921941
Length
56 bp
Sequences
Splice sites
5' ss Seq
AGCGTTAGT
5' ss Score
-2.24
3' ss Seq
ACTATAACTTTTTTATTTAGAGT
3' ss Score
6.67
Exon sequences
Seq C1 exon
GATTACGCGTTTAATGAACTCAAGCTCCTGTGATCCCTCTGGCCGTCGCATGCTAGCTCGTCTTCAGAGCTACGTGGCTGCCAATGAGGCCCAGCTGCGTCTTGCCCAGCAGCATGTCGATTTGCAGTGGGAACAGTTTCAGGATGTTGTGCGGCGCAATTCGAAGTCTCGCATGCACATGCCTTGCCTAGAGGGAATCTATCAACGACTGACAAGACTACAAAATCTAACTTCTAACCAGCGAATTGTACAGAACAACATCAAGTCCAAACTGAAGGAGCGCGGATTGCTTCAGGCCGCACTGCTCGACCAGGAGAAAAGTCGCACCCGCACCAACGAAGC
Seq A exon
GTTAGTAGAAGTTATTGTGACCTCTCTCTTTATGCGACTATAACTTTTTTATTTAG
Seq C2 exon
AGTGGATACATTGACCGACTCCATTCTCACGATGAGTCTTAGCCAGGTAGTGGACTCTAATGCAGCCAAGCTCACTCGAGAAAGACTACAAAAAATCCGTAATATTGTTCAGCTGCAGAAGATCAATGTTATTTGTCCCCAGCGACCAGATCGAGTGGGGCTCAAGTCGGAGGTTATTTTGGAAACGAAACGTAGGGCGGAGCAAATTAAAAGGGCAGCAGCCAAGCCTGCAACAGCCAACAAATACACCCAAGCAGCAGTCGCTCCGCCTTCACCACCAGATGTTGCACCCACGCCAGCTGTTGCACCCATGCCACAAGCAACTGTTACAGTGGCTCCTCCGCTGCCTAAACCAATGCCATCTATACCGTCCGTTGTGGAAAAGCCTGGAGTGCCCACACATCCGACAACTCCAGTGGCTACGCCATTTTCCTTCAGCCAAAGCATCCCATTTGTGAAGACATCTACTGTGACGCCAACGACAAATACTGTGACTCCTGGCGAAGCAGCCAAGCCGGGTTTATCCATTTTCGGCGGCAGTACTATTTCCAGCTTTAGTTTTGGTGGTGGTGCTGCCAAGTCGGCACTCTCATTCGGAACAGGATCGCCAGCCGTGGCAGCTCCTACACCAAAACCAAACCCGTTGTCAGCGGTCGAAAAACCAACACCCGAGCCGACTAAGCCCAAAGAGCAGAAAGCAGCAGAAAGCAAAGAATTCAAGGCGGTACAACCCGAAACAGAAGAGTCAAAAGTACCCCAAAAACCAAAGGCAGAGACGGAAAACAAATCCTTTGGATTTGGAGGATTTACAGGAACTGGAGGTACTGTCGGAAATACTTCCAGCTCCCCGTTCAGCTTTGGCGGACTGGGTTCATCTCTAGGCTTCGGAGGAACAGCCGCTGCTGTGCCAAAATCTGAACCTTCCAGCACAGCAACCACTAGTGTAGCCACATCAGCTTCAACTGCACCATTTGGCATCTTCTCAGCAGCTTTGGCGAAACCATCCAACTCTGAACCGATCACCACGGTCACTAGCAACACAACCACCATCACCAGCAAGCCTACGAATGTAATTGCTTCGAGCAGCGTAACTGATGCTCCTTCCGTCACCACAACAAATGCAGTGACCAGCAGCACGGATCCTATTGGAGGCCTCTTTAGCTCTGTGACTATCTGCAAGCCCAACACTCCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0010660:FBtr0071996:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.122 A=NA C2=0.657
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0071905
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAACTGAAGGAGCGCGGATTG
R:
GCTTGGCTGCATTAGAGTCCA
Band lengths:
145-201
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Neural diversity
- Neurogenesis
- Neuronal activity
- Splicing factor regulation (brain)
- Splicing factor regulation (SL2)