DmeINT0037149 @ dm6
Intron Retention
Gene
FBgn0261041 | stj
Description
The gene straightjacket is referred to in FlyBase by the symbol Dmelstj (CG12295, FBgn0261041). It is a protein_coding_gene from Dmel. It has 4 annotated transcripts and 4 polypeptides (3 unique). Gene sequence location is 2R:13805794..13819571. Its molecular function is described by: voltage-gated calcium channel activity. It is involved in the biological process described with 7 unique terms, many of which group under: neuromuscular junction development; synaptic signaling; macroautophagy; divalent metal ion transport; detection of stimulus. 31 alleles are reported. The phenotypes of these alleles manifest in: cell component; synapse; organ system; somatic cell; cell. The phenotypic classes of alleles include: flightless; stress response defective; some die during embryonic stage; phenotype. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderate expression to a trough of very low expression. Peak expression observed within 12-24 hour embryonic stages, during early larval stages, at stages throughout the pupal period, in adult male stages.
Coordinates
chr2R:13809275-13810363:+
Coord C1 exon
chr2R:13809275-13809669
Coord A exon
chr2R:13809670-13809913
Coord C2 exon
chr2R:13809914-13810363
Length
244 bp
Sequences
Splice sites
5' ss Seq
CAAGTATAT
5' ss Score
1.98
3' ss Seq
CCGATACTCACCATATCCAGGCC
3' ss Score
4.23
Exon sequences
Seq C1 exon
CACCGGATGTGATAAAAGCAATTCAGTGGTCGGAGAATTTGGATCAGATATTCCGTGACAATTACAAAAACGATCCGACATTGTCGTGGCAATTCTTTGGCAGTTCGACTGGCTTTATGCGTCAATTCCCTGCATCGAAGTGGCGAAAGGACGTACCGGTCGATCTATACGATTGCCGACTACGCTCCTGGTACATGGAGGCGGCGACGAGTCCGAAGGATATTGTTATCCTGATGGATGGATCCGGTTCAATGTTGGGACAGAGGCTAGATATCGCAAAGCATGTTGTCAATACGATACTCGATACATTAGGTACAAATGACTTTGTGAACATCTTCACCTTTGATAAGGAAGTGAGCCCAGTCGTCCCATGTTTCGAAGACACACTGATTCAA
Seq A exon
GTATATATCGATTCTGTTTATGTTTATCAAATTTCTCTTCATTTAACGCATATTTGATTTCTTCTATCCCCAAAAAACAAAAATTAATAACGAACATCACCACCAAATCCGAAATCTCAAAACAACAACAACACACTCAATTGATGCCACCGAATACGAATACAAAACACCAATCAACCAATCAATCGAAATCCCAAAAAAAAAAAAACAAAAAAACAACACACCCGATACTCACCATATCCAG
Seq C2 exon
GCCAATCTGGGCAACATACGCGAACTGAAAGAAGGGATTGAACTGTTTAGACCCAAATCGATCGCCAATTATACCGCTGCATTGACAAAGGCATTCGAGCTATTGGAAGAGACCAAGTTGAGTTCGCGCGGGGCGCAGTGCAATCAGGCGATCATGATCATTGGCGACGGGGCGCCGGAGAACAATCGCGAGGTCTTCGAGTTGCACAATTGGCGGGACCCGCCGTACAAGCCGGTCCGTGTGTTCACCTACCTGATTGGCAAGGAGGTGGCCAATTGGGATGATATACGGTGGATGGCGTGCGAGAATCAGGGCTACTACGTCCACCTCAGCGACACCGCCGAGGTGCGCGAGATGGTCTTGAATTACATACCGGTTATGGCCAGGCCGCTCGTCCTGGGCAGGCACGATCATCCGGTGATTTGGTCGCAGGTCTATGCGGACATCGAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0261041:FBtr0087631:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.007
Domain overlap (PFAM):
C1:
PF083996=VWA_N=PD(34.8=35.6),PF135191=VWA_2=PU(31.7=43.9)
A:
NA
C2:
PF135191=VWA_2=PD(67.2=82.0)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0293237
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0086757, FBpp0293238
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:
TAAGGAAGTGAGCCCAGTCGT
R:
TCAGGTAGGTGAACACACGGA
Band lengths:
305-549
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)