DmeINT0002021 @ dm6
Intron Retention
Gene
FBgn0036287 | CG10663
Description
This gene is referred to in FlyBase by the symbol DmelCG10663 (FBgn0036287). It is a protein_coding_gene from Dmel. It has 3 annotated transcripts and 3 polypeptides (1 unique). Gene sequence location is 3L:12474418..12485035. Its molecular function is described by: serine-type endopeptidase activity. It is involved in the biological process described with: proteolysis. 6 alleles are reported. No phenotypic data is available. The phenotypic classes of alleles include: fertile; viable. 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 06-24 hour embryonic stages, during late pupal stages.
Coordinates
chr3L:12477824-12479877:-
Coord C1 exon
chr3L:12479712-12479877
Coord A exon
chr3L:12478132-12479711
Coord C2 exon
chr3L:12477824-12478131
Length
1580 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CTATTGTTTCCATCCATCAGAGT
3' ss Score
6.32
Exon sequences
Seq C1 exon
TGCATTTGTCAAGGTTCTTGGATTCACGGATTCGTTACGACGGTATTGAAAACTACCGATCGATTTTCGATTTTCGAGACAACGAGACCAGAAGCAATTGAGCATGAAAGTGGTGTGCTGGGTTTTGGAATTCCTCACGGTGGTTCAGCTGCTAATCGAAACTCAG
Seq A exon
GTGAGTGTGTATAAGTCGATCAAACCACCCACTTGTCGAAATTCGAATCAAAATCCAGTATCGTAAATTACGTCAACCCGAAGCAATTCGTTTGGGAACTGCGAACTATTTATTCACGAATGCAAGGTCAATTACCGCAGCCAAATTAGTCGCACTCTCGATTTTTTTATTTTTTTTTTGAATTATTTTGTATATTGTTATATCGGCGGAATCGGTTGCGGAACGATATATACATATAGTTGATTCTCCTTGAGCTTGAGGTGTGCACAGAGCGGTTCGCATTTCCGCATGATTTGATGGGAATGTTTGCGTTTTCCATTTCTGAGTTTTCGAGTTTTCCAATTTGACCCTGACCTACGTCGTTTTTCGAGTGAGTCTGATTTATTGGCACCTCATTATGCGAACATAGTGTGTGCTGGTTTATTTGATTCGACTAATTTCAGCTGTAAACATGGTCATTAAAATAATTTAGCTATTCAATTCATTGACTAAAATCTCTTGATTACCCCGCTTCTGCTCGCTGGAACGATAATGGCTTCCTGTTTTTGCAAAAAAAAAGGCAGATGATTAGGTGAAAGAATTTGTTAGCTGGTTGGAATAAATGAACTACTTTTGTTGCTGGATATTGTCATTTGAGTGTACCGGTTATGCTTATTTTCCCGAGAATTTTTAGAACCAGTCATAGAACTAATAAAACTTTTTGAAGCCTTCATTAATTTCGAATCTCCCTTTGAGGTCAGACAATCTTAAAACTGACGCCATTAAATTATGTCTAACATACTCAAACTAGCTTAATTTCGAATAAAAGTAACAATTTTTATAGAGTGAAAAATTACAGATTATTATTTTTACTTGAAAACATCAACTTTATTATACTCGTTCATGTCTTAGCTCATTCAAATCAGAAGTATAGTTATGAATATTATTCACAACTTGATTGTGACTCAAAATGGATCATGATCGCCTTCAAGTGAATATACTTATCTGTTGTAAAACTTGGCCCATTTACACGATCAGTACTCAGCAGCACAATGAGGCACCAGAATGTGTCCCGTTCCCCGGGGATGTGGCGACTGCAGGGCGTTGGTGAAGAGGTTATGGCAATCGGTTATGTCGGTCCTCGACAGACGTCGAAGCCTATTTTCGACTGGGACGGATGCAGGGATCCGCCGGATCGGTCGGCGAAAAGCGTGTGTTATTTATAGAGCGGCGTCGCGTCGCCGCCTGGCGTCCCATTTGGAACTGGAGCTGGGACTGTGGTGTACCATGGTATATCGCACCATACATACACTTTCCTCGGGGATCACACTGCGCTGGCAGACACGAGACTGTCGAGAGCAATGACACTTCAAATAAAAAGCGGCGACATGTCTGATTTATAGTGGTTGGATGTGGATGTGAAAGAGGATGAGGAGGCAGGAGAACAGGGAAGCTGGGCAGCGAATGTGGGCTCCTTGAGGCCAGCAAAAGAAGTCGTAGGGCGCAGATCGCATTTCACACTCGACCCCGCAGTAAAGTGGGAAATCCAAAACCCAATCTTTATTACACACACACAAATTCCTATTGTTTCCATCCATCAG
Seq C2 exon
AGTGGCTATGTGCAGGAAGCGAAGAGGGAAATTTGGGATGCGATGGCTCACCATCGCCATCGACACCATCAGCACTATCACCACGGATCATCGCATTGGATAGATGGGCGGCGGGTGCACCGTCTCCGGATGCCACACCCACAGCGCTGGAGTGGGCGGCGGCGATCGCTCAATCAACACCAGCCCTTCAGTCGCTGGTCCCAGTGGTCACCATGCGACGAGGAGTGCGTCCGCCGGCGGGAGCGGTTCTGCAAGGTGAAGCGCAAGTGCGGACACACCAAGCACGTGGAGCAGAGCAAGTGCAGCCA
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0036287:FBtr0113167:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.282
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0112080
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0312168
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:
CGAGACAACGAGACCAGAAGC
R:
CTTCACCTTGCAGAACCGCTC
Band lengths:
353-1933
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)