DmeINT0027603 @ dm6
Intron Retention
Gene
FBgn0010905 | Spn
Description
The gene Spinophilin is referred to in FlyBase by the symbol DmelSpn (CG16757, FBgn0010905). It is a protein_coding_gene from Dmel. It has 12 annotated transcripts and 12 polypeptides (9 unique). Gene sequence location is 3L:2505245..2554292. Its molecular function is described by: neurexin family protein binding; actin filament binding. It is involved in the biological process described with: neuron projection development; negative regulation of presynaptic active zone assembly; calcium-mediated signaling; actin filament organization. 29 alleles are reported. The phenotypes of these alleles manifest in: presynaptic active zone; embryonic/larval neuromuscular junction. The phenotypic classes of alleles include: smell perception defective; behavior defective; viable; flightless; neuroanatomy defective; partially lethal - majority die. 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
chr3L:2509762-2511763:-
Coord C1 exon
chr3L:2511163-2511763
Coord A exon
chr3L:2510576-2511162
Coord C2 exon
chr3L:2509762-2510575
Length
587 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
AATCGGTTTTAAAACAAAAGCCT
3' ss Score
-2.27
Exon sequences
Seq C1 exon
CTGGTCAAGCTCGAGACGACGGGCAATGAGAACGAGCTGCTTAGCGAGCGACTGCGGCAAAGCGAGCGGGAGCTGGGCAATATCCGGAAGGAGGCGGCCAACCTGCAGAACATGCTCCAGCAGTCGCAGGGTCAGTATATGGCGCTGGACAAGAAGTACAACAAGGCCAAGCGGCTGGTCAGGGAGTACCAGCAGCGAGAGCTGGACATGTGCCATCGCGAGGAGTTCTACCAGCAGCTGCTCCAGGAGAAGGACACCGAGTACAATGCGCTGGTGAAGAAGCTGAAGGATCGTGTGATTAATCTGGAACACGAGCTGCAGGAGACGCAGCGCAAGGCCGGTTTTCCAGTGGGCCTGCCCTACGATAGTGCCACTCTGAAGTTGACGCCCCAGATGATGCGTAAGACGCCGCCAAAGCCGCTCTTCCACAAGCTCGAGACGGAGCTGTCGGATACGGAGATATCAGATCTCTCACCCGACGGCGATGGCGTTAAGACAGCCACTGTGGAGCGTAAGGTTCCGGTCAAGGACGAACTGGATGCGGCAGTGCCGCAGCACGAGCTGCTGGATAACTCGATTAACAAAACCAAAATCGATCTGG
Seq A exon
GTAAGTCATCACCATAAGATATTCTCTTACCCAAGCACCTTTTACTCATTAACTACAAGAATGTCATGGGTTTTAAAGAAAGTATGCTTTGAATATCACAAGTGCACTGTCGTTAAGGATATTCTTTTTTAACTTTAATCCAAATGAGTTTCGTTACTTATTCAATGCTAAAGTTAAGAACCATGATAATCCTGTTTTAAGTGAGCGTTACGTTCTTTGTGCTTTGAGCTTTGAACTGCACCTGAGTTAAAGATTCGACCACTGCTCCTCCTCTTCATTTCCCTTTGCTACTTTCTTCTTTTGTGCTCCGTCATTGTCATTCTGTGCTAATTGTTATTCTCTTTCTTTCCATTTCTCTCGATTTTATTTGATCTCTGTGTGCCGTCTGTTCACGTTCGTTATATCGTTGTTCATGTTTGTATTACGTTCTTTGCTCGTTGTGTTCTTGTGACTGCCACGCCTACACGCTGCGCCCTCATTTTGCCCTCCAACTTCAACAAATCGAAAAAACCAAAATCAATTCGAAAACAACACCAAATCAAACCAAAATCGCACCCTGCCAATTGAAATCGGTTTTAAAACAAAAG
Seq C2 exon
CCTCCCGTGGTGGTTTAGCCAACCGCCAGTTGCCCTCAGCAAATGGAAACAGTAGCACATCGAATGGAGCCGCCGTTGATCTTGGCCAGCTTTCGAATGGGAATCTGCTCAAGCGCAGCCGGAGCAACAGTCGCAGCTCGGACTGCACGCTGGATGACACGGATGAGGAGGAGGAGCGAGAGGGCTCGGCATTGAACCTAGCAGGCGCTCCTGTCGCCCATGAAACCATCAGTCTCTCCAATGGCAACTCGCATCTGCTGGCCAACGTGAATAATCTGCTGCAGCACCATCCGCCGGCAATGGCCACAGTGATCGCCACACCTTCAAATGGCCACCTGGGCACCACCACGCCCATTCTGTTGAACTCCACCTCCTCCGCCTCGTCCAGTTCGTCCAACCAATCGACGGCACGTGAGGCACAGATCAACCAGCTGTATGCCCAGGTGCACAAGGATCCCAGCAAGCAGCAACATCAGCAGCAGCAGCAACAACAGCAGCAGGCCCAGGCCGTGACCACCAGTATTCCTAGCATTTTCAAGAACGCTTTGGGTTCTCCGGCGGACAATGGACTCAACGACTTTCATCGCGGCAGCATGACCACCTTTGGAACAGGTCCAGCCACAAGCAGCAATCGTGATCTCAACAGCTCGTACGACTCTATCCTGGGCTCCAACGATAAGCTAGCGGAGAACGATCCCGCCGAGAGTTGGATGTATCCCAGCAGGAGGCGAGTGGCACCGAATGGCAGCAAAGTCCCACTGCCAGGATCCAGCTTTACTGATCAACTCAACCAGGCGCTGTCCGATCGAGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0010905:FBtr0304613:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.550 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0293163
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0293155, FBpp0293156, FBpp0293157, FBpp0293160, FBpp0293161, FBpp0293162, FBpp0311289
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:
GCTCTTCCACAAGCTCGAGAC
R:
TCCTCCTCATCCGTGTCATCC
Band lengths:
354-941
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)