DmeINT0004915 @ 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:14617304-14618421:+
Coord C1 exon
chr3R:14617304-14617834
Coord A exon
chr3R:14617835-14617893
Coord C2 exon
chr3R:14617894-14618421
Length
59 bp
Sequences
Splice sites
5' ss Seq
ATGGTATAT
5' ss Score
3.91
3' ss Seq
CTTTAATTCCTTCATTTCAGGCA
3' ss Score
8.26
Exon sequences
Seq C1 exon
TGGCCACATCCAGCGACAGCGATGAGAACTACAATAAATCTTCATCGCCCGACTTGGCTCTGGATCTGCATGCATCGGATGTGGAGGCTGACGTGGACGGGGATGAGGCAGGAGATGCTGACGAGGATGGGGATGCTGATGCGGATGGCGATGGCAGCGAGAGCAGCAACAATTGTTCCGAGGAGGAGGATAATGGATGGGGCGATGATGAGATTGACAACGTGGATGTGATGGATGGCGAGGAGGAGAGCAGCAGCAGTGGCGATGACTTCGATTTGCCCATCGACGATGCAGGTCAGGATCCAGCTGCTCTAGCAGTTCACGTACACCATTCCCATACCCACTCGCACTCCCATTCCCACAACGATTCTGGATCCTCGAGGAATTCATCGAGCGGCGGTGGTGGACGCAGCGACAACACCACACATTCCTACTCCAGTTTGCTCCTGGAGGAGGAGGACGATATCGTGCCCGTAAGCCTTAACTTTGGCCTAAAGGAGAACACCGCAGCTGACCTGGACGTGAGCAATG
Seq A exon
GTATATGTGTGATTAATCAGTATTTCCGTACATTGACCTCTTTAATTCCTTCATTTCAG
Seq C2 exon
GCAACAAAGTACCCTCCGCCTCCTGCAGCGACTCAGAATCCCCGACAGAACCGCTCACCCAACGCCTGGCGGCCATCCTGCGCTCTAAGTGCGGCGTATCCGGTGGTGGGTCAGATGAGACCTACTAAAACCATATATGTGTATACTCGTATATACTCAATCCCAAAACTGTGCAGAAATTCTTTTGGTGTGGATAGTGCTGACGATTTGCTTACAGAATGATGTTTGATTTCTTGCCCGCTGCACAGGGGCATCTATATATTCTTGTATAACTATTTATATAAACACACTCCACCCTTTGCCCGGCTAGTTTTTCCACTAGTGCGATCGCTTTACGAACCTAGAAACCGTCCCTAACTGCATACTCTCGTATCTCGTATCTTGTATCTTCACTTGCAAAGTTTTCTCCCTAGGACAAACATATCGTACAAACTCAATAAGTACTTATATATACATTAATACCTATTTATACTATTATATATTGTACATGTTAAGCCTAGAACCCAATAAAGATATACTCGATACAGT
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0038246:FBtr0082961:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.944 A=NA C2=0.833
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
TCCTGGAGGAGGAGGACGATA
R:
TCTGTCGGGGATTCTGAGTCG
Band lengths:
136-195
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)