DmeINT0004913 @ dm6
Intron Retention
Gene
FBgn0038246 | CG14853
Description
This gene is referred to in FlyBase by the symbol DmelCG14853 (FBgn0038246). It is a protein_coding_gene from Dmel. It has 4 annotated transcripts and 4 polypeptides (1 unique). Gene sequence location is 3R:14609642..14618987. Its molecular function is unknown. The biological processes in which it is involved are not known. 10 alleles are reported. No phenotypic data is available. The phenotypic class of alleles includes: viable. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderate expression to a trough of extremely low expression. Peak expression observed within 12-24 hour embryonic stages, during early larval stages, during late pupal stages, in adult male stages.
Coordinates
chr3R:14616952-14617246:+
Coord C1 exon
chr3R:14616952-14617009
Coord A exon
chr3R:14617010-14617174
Coord C2 exon
chr3R:14617175-14617246
Length
165 bp
Sequences
Splice sites
5' ss Seq
TGAGTGAGT
5' ss Score
6.51
3' ss Seq
TTTTATACGCACCGATGCAGTCC
3' ss Score
2.9
Exon sequences
Seq C1 exon
TTCCTGTCCGCCGTGATGCTAAAGGACTACAAAAAGGCATTGAAATATTGCAAATTGA
Seq A exon
GTGAGTAGAATACAAAATCAGCTTCCAAAGTATGTCACCATGCTTCCGAGAGTTGCAATTACAACTTTTTTTTGTTCGAATATGACAGAGAAATCGCTTTTTTTGGGACTTTAATGTAATAATTTCTTTAATTTATAATTTATATTTTTATACGCACCGATGCAG
Seq C2 exon
TCCTGCAATACGAGCCCGACAACGCCACGGCCAAAGAGTTCTATCCCCTCATCCTGGACAAGTTGCGGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0038246:FBtr0082961:4
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=0.000
Domain overlap (PFAM):
C1:
PF148531=Fis1_TPR_C=PU(40.0=80.0)
A:
NA
C2:
PF148531=Fis1_TPR_C=PD(57.5=92.0)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0082419
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0082420, FBpp0306145
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:
TTCCTGTCCGCCGTGATGC
R:
CTGCCCGCAACTTGTCCAG
Band lengths:
130-295
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)