DmeINT0002919 @ dm6
Intron Retention
Gene
FBgn0030101 | CG12118
Description
This gene is referred to in FlyBase by the symbol DmelCG12118 (FBgn0030101). It is a protein_coding_gene from Dmel. It has 3 annotated transcripts and 3 polypeptides (1 unique). Gene sequence location is X:9194750..9196414. Its molecular function is unknown. It is involved in the biological process described with: cobalamin metabolic process. 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 high expression to a trough of low expression. Peak expression observed in adult male stages.
Coordinates
chrX:9195551-9196414:-
Coord C1 exon
chrX:9196196-9196414
Coord A exon
chrX:9196137-9196195
Coord C2 exon
chrX:9195551-9196136
Length
59 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
ATAGCACTGATTGCCAGCAGATT
3' ss Score
1.48
Exon sequences
Seq C1 exon
TATTGAAAATTTTAGTTTAGAAAAACAGAAAAACGGAACGACGTAGGAATCCAGTAGCAGCTGTGCGTCAAAAAAAACTAGTCGTCTCTACTTTCAAATAGGCAATAGATTTAATCTGAAAACAAAATTCAACGTAAAATTCTAAAGCCACATAAAATCCGGCATTATTTGAAAGCGTCTGCAGAGCACAGCACTCCAAATCCAGTTCCGCCATCCAAG
Seq A exon
GTAAGCACCATTGTCGTCGCATTGCATCTCGCATCCAAAATAGCACTGATTGCCAGCAG
Seq C2 exon
ATTCTACGCATTTACAGAAGCATATGATATAATAATGTCTCGATCATTGAGTCGCGTATTGGGTACCATCTGGGCGCCATCCCTGTCCATTTCACATACCGTACATCGCGGATCCAACAGACTGAACGACCTACTGAGCACCAAGGTGACCAACACGGCCATCATTCCGGTGGCTAGATACTCCAAGCGAAATGGCCCACCGTCGGATGCCGGCGGATACTTTAAGACCGTCAAGTCGCGGGATCTCGACGACGACGATGAGCTAAATAGTTTGGAGAGTGAGCCCAACTGGGAACTGACCGCCGAAAGAGGCAATCGCTTCTATCTGCCAAATGGCATTGGGCCCGCCTGGCAGGGCGACAGCACCACCGTCGGTCTGCTCGAGCCGCTTGGCCACCTGGTTAACTTTCACAAGGGTCCCAATACGGACAAATCGCGCCTGGAATTCACCTGCTGTAAGTGTCCCCTGCTTATCCGTGTGCCACTCTTGGAGATCTTCCCGGTACCCGTCGTCGCACAGCAGTGCATAAACATCACCATGCTTGTTCTCAGCCACGAAGGAGACATCGAAATGGGCGCTGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0030101:FBtr0071339:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.141
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF102294=DUF2246=PU(64.2=90.8)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0071274, FBpp0071275
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:
CAAATCCAGTTCCGCCATCCA
R:
CAGTCTGTTGGATCCGCGATG
Band lengths:
147-206
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)