DmeINT0013273 @ dm6
Intron Retention
Gene
FBgn0034158 | CG5522
Description
This gene is referred to in FlyBase by the symbol DmelCG5522 (FBgn0034158). It is a protein_coding_gene from Dmel. It has 7 annotated transcripts and 7 polypeptides (2 unique). Gene sequence location is 2R:16783671..16792472. Its molecular function is described by: Ral guanyl-nucleotide exchange factor activity. It is involved in the biological process described with: regulation of Ral protein signal transduction. 9 alleles are reported. No phenotypic data is available. The phenotypic classes of alleles include: partially lethal; viable; fertile. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of low expression. Peak expression observed within 00-06 hour embryonic stages.
Coordinates
chr2R:16789712-16790266:+
Coord C1 exon
chr2R:16789712-16789915
Coord A exon
chr2R:16789916-16790155
Coord C2 exon
chr2R:16790156-16790266
Length
240 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
TCTGCCCAAAACGAATGAAGATT
3' ss Score
-1.17
Exon sequences
Seq C1 exon
GCGCTCTCTAAACCTGGAACCTGCGTCGCCCTCTGGACCCAGTTCTTCGTCCTGCAGCTCAAAAGAGTCCTTCAATGTGGAAGTAGTTACTCCGGCCCTTGGATGCCTAAATCTCTCGCCGGCCAAAACCATTGGCTCCATGCGAATGGCAAGCGGCACAAAATTTGTGCCAGGCCATCGCAAGTGTCGCAGTCTGGGCACCAA
Seq A exon
GTAAGTAAAAGGAATCCTACGTTTTGAGAGCCAACACTTGGCTTCCCTTGTTAACCACCTGTTTGAAATCCACCACCTCGAATCACTGCGCAAGAATTGGACATTTGTACACTGGGTCCTTATTAATCGTTTAAATCTCTATGTCTCTCACTTCTACCGTTTTGCTTTTGTCTTATGCTTTCGTTTTGTGTGTGTGTTCGTTAATTGTCAAACATCCGCCTCTGCCCAAAACGAATGAAG
Seq C2 exon
ATTTCGCAGCAGCAGCCTGCCGCGAAACTTTGCCGAGAAGTGCCAATGTTGCATCGTCATGATTGCGCCGGGCATCGGCACCATCTCCAACAAGCGTTGCAGATGCCGTCG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0034158:FBtr0087026:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.246 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0086177
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0086180, FBpp0086181
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:
GCGCTCTCTAAACCTGGAACC
R:
TTGTTGGAGATGGTGCCGATG
Band lengths:
297-537
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)