DmeINT0037266 @ dm6
Intron Retention
Gene
FBgn0004648 | svr
Description
The gene silver is referred to in FlyBase by the symbol Dmelsvr (CG4122, FBgn0004648). It is a protein_coding_gene from Dmel. It has 12 annotated transcripts and 12 polypeptides (7 unique). Gene sequence location is X:496446..509072. Its molecular function is described by: metallocarboxypeptidase activity; zinc ion binding; carboxypeptidase activity; serine-type carboxypeptidase activity. It is involved in the biological process described with 6 unique terms, many of which group under: metabolic process; developmental process; negative regulation of phosphate metabolic process; regulation of organelle organization; post-embryonic animal organ morphogenesis. 79 alleles are reported. The phenotypes of these alleles manifest in: anatomical group; sensillum; eo-type sensillum; crossvein; adult sensillum. The phenotypic classes of alleles include: lethal; increased mortality during development; increased mortality; phenotype. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of moderate expression. Peak expression observed at stages throughout embryogenesis, during late larval stages, at stages throughout the pupal period, in adult female stages.
Coordinates
chrX:502836-504785:+
Coord C1 exon
chrX:502836-502936
Coord A exon
chrX:502937-504667
Coord C2 exon
chrX:504668-504785
Length
1731 bp
Sequences
Splice sites
5' ss Seq
ATGGTATTA
5' ss Score
2.15
3' ss Seq
CCGCTCTTCCTATCCCGCAGGCA
3' ss Score
11.03
Exon sequences
Seq C1 exon
TTACCAGACCAGTGCCCCGCAACAGGTCCGGGTGACCAACGATAACCAGGAGGCCTTGCGCCTGGACTTTAAGCTTGCGCCCGTCGAGACGAACTTTGATG
Seq A exon
GTATTAGCAGTTTTTACAGTCCCTATTATTTCTAGAGAGGGATGCAACGGAAATACCTATATATATGCGCATATATATTATATTGGGCAGTTCCAAAATGCTATACATATATCCACATTTAGCGATGCATAGTATTCTCTGCTCTCCTGCCCTCTCCGCACTATCCTTGTACTATATATGTTATCTCCGCCATTCCCGAATCCAGATATACAACCATTTTGCATGTTCATTTGCTCCCTCTCATTTAGAACCTTTATTTGTTTACCGCGAGAGCTAGCAGAAAATAAACAATGTTGGCTGTCGTGTGGATGAATTGGTTTGGTTTTGTCTCGAATCTTTTGTACATACACTTTTTTAATTTATCTTTTAAAAACTTCTGTTTCATTTTTATGTTTTTTTCGCATTTTCATACGCTTATATGCCAGCCTATGTTCCTTCCACGCCATTACTTCAGACGCGCACATATTTAGTGGATGCTTGATTTGTATATAGAGAACGTATTAAGAACAAACACGAAGAAATAGCAAACCAAATAACGAAATGAAATAAATTAAGGAAATAAGCGAATTGTACTTAGGCAATATGCAGAAATTGGCCCACTTATGGTCATCGAATGACACATTCCCAATACGAATCGGTTATAGCTTTATCAATATTCCCCTTATCTTCCGCACACCCTAAAACATATTGTCAAGTATTTTAGCAACGATGCAAAAAAACTATGATAAATCCAAAGCCCACTACATGAACCTACTGCTAAATATACTGTATACTAAATAGACTGTATGCGCACTCTATGGTTAGTCCTATCTGGAATGATTGTTGAGCATTTATCCAAAAACAAAAGAACCTACATTTGATAGTGAGGCGAAATTATTATCAATTCCGGTCCGACGCGTGCTCACGCATGGCTTTTGATATATACTATAGACGAGAACAGGTTACAATCAAATGAAGAATATTGCAATGGCGAGAACCTTGCGAAGTATAAATAAAATATTAATGTTCGCTTGCTGCGTTTTATTTTCATTCATTGCTCTTTAATTCGGTCTCTAAATGAATTTTTTGTTTTCGAGCACATTATTGGTGTTTTCAAAATCTGGTGCAGTGTTTTATTAATCACTCGTTTTTGAAAAAAATGAGATTTTATTTGAGATCATTTTCAATTCATTAATCATCGAATTCAGGACATATTTTTTCTTTATTCTGATCTTTAGCAATTTTACTTTCTTTTTGGTTTCGCAGTACGACTTAGTTTTTCCATTTTTCTTTTGTTTCAAAGGCCTTATATGTAGCCTAACGGTGGAGTCATGGTTAGGGACGTTCAAGAAACTCCCAGTCACATCTAAATGAAATTTAAAATGTATCTTTCACTAAGTACCTAAAAAAAAAAAAACAACAATTTAAAGCGTCTGTGCCAAATGTGAAGATTTCGGAATGGATTTGTTTATATATATATGTATGACCAGCATACAAAAGTCAAGCAGTTTCTTTGGTATTTTATCTTAAATAAATGTGAACTATGAAATTATGGCAAAATAAACGAACAAAATTATGAATTTGCTTGTGCTTCTGATTCTGTTGCTAACTCTATCTGCTCCCGTCGCTAGACGCTTAGACGCACTGCATCATATTCTCACCGGAACCCGCATGATGCACCCCATTACAAAAACTGGCATTGCACTAAAGACAACCTTACCCATTTCCGTTTCCGCTCTTCCTATCCCGCAG
Seq C2 exon
GCAACTTCCGGAAAGTAAAGGTCGAGCGCTCTGAGCCTCCACAGAAGCTCAAGAAGCAGTTCAATGGGTTCTTGACCCCGACTAAATACGAACACCACAACTTTACGGCAATGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0004648:FBtr0070081:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.055 A=NA C2=0.125
Domain overlap (PFAM):
C1:
PF136201=CarboxypepD_reg=PD(32.5=74.3)
A:
NA
C2:
PF0024619=Peptidase_M14=PU(0.7=5.0)
Main Inclusion Isoform:
FBpp0089125
Main Skipping Isoform:
FBpp0089126
Other Inclusion Isoforms:
FBpp0089124, FBpp0309132, FBpp0311069
Other Skipping Isoforms:
FBpp0070080, FBpp0089123, FBpp0288455, FBpp0288456, FBpp0311070, FBpp0311071
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:
TTACCAGACCAGTGCCCCG
R:
TCCATTGCCGTAAAGTTGTGGT
Band lengths:
216-1947
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)