DmeINT0015939 @ dm6
Intron Retention
Gene
FBgn0034493 | CG8908
Description
This gene is referred to in FlyBase by the symbol DmelCG8908 (FBgn0034493). It is a protein_coding_gene from Dmel. It has 2 annotated transcripts and 2 polypeptides (1 unique). Gene sequence location is 2R:20264920..20270994. Its molecular function is described by: ATPase-coupled transmembrane transporter activity; ATP binding; ATPase activity; lipid transporter activity. It is involved in the biological process described with: lipid transport; transmembrane transport. 8 alleles are reported. No phenotypic data is available. The phenotypic classes of alleles include: viable; fertile. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of low expression to a trough of very low expression. Peak expression observed within 00-06 hour embryonic stages, at stages throughout the pupal period, in stages of adults of both sexes.
Coordinates
chr2R:20265223-20266919:+
Coord C1 exon
chr2R:20265223-20265724
Coord A exon
chr2R:20265725-20265776
Coord C2 exon
chr2R:20265777-20266919
Length
52 bp
Sequences
Splice sites
5' ss Seq
CAAGTATGC
5' ss Score
5.38
3' ss Seq
TAGCTTAATGGTATTTTTAGATG
3' ss Score
3.01
Exon sequences
Seq C1 exon
GTACATTTACTACTCACCTGAGAATCTAGTCTTGGCTGCTGTCATCGAGGATGTGGTTCACGATCTGAAGGCCGTTGGCAGTAAGGCCTTTGCCAGCGCATCTGAATTGAATAAAGCGCTGATAGGAAAGGATACATATGGCTACGTGGGCATTGAGTTTGATGACAGCTTCAGCGACATAAATGAGCTTCCGATTAATGTCACGGTGGGCCTGCGTTTTCCGCTTCACCTACGCAAGAATCCCAAGATGGTTTGGGACAACACTTCAATCTTGAAGCACTCCAAAATGGACGTTGATTACTATCAGGTGGAGGGATTTTTGGTTGTGCAAGCCAAGCTCAGCGAGGCGTTGATCAGGGCCAAAAACGAAGCCGTCGTCCTGCCGGAAGTAATCCTGCAGCACTATCCCGATGTCGCGGAAGTGGACAGATTGGATAATAGGGTAGCTTTGGGCGGAGTTCTCTTCCTGCCCGTCACCATATCCGCCGCATATCTTGCCCAA
Seq A exon
GTATGCACTAAGTTAGAAACTTTCATATATGATAGCTTAATGGTATTTTTAG
Seq C2 exon
ATGATTGTGATGGAAAGGCGCGATCATTTGAGGGACATGCTGGAACTCATGGGTGTGAGGGCATGGATATACTGGTTGTCCTGGTTTCTGGTGGCCTTCCTGCTCCTGTCCATTCCCACCGTATTCATGGTTCTCTTGCTGAAGTGGCGTTACTTTTCGCTGAGTGATTCGTCGCTGGTGCTGTTCTTTCTGCTGGTCTACAATTTAGAGGTCCTCACGTCGGCCTTCATGATTTCGTCCTTTTTCTCGGACACGGTCGGCGTGCAAGTGGCCATAGTGATCGTGCACCTGATTGGCTGCCTGCCATGGCGCCTATTGCTCATGGGCTATGTTCCCACTTTGCCGCGCACCATATTCGTCTGCTTGTTCCTGAACAGCTCGTTGGCCATGGGACTGCAGCAGTTCATTAAGAGCGAAAACCTTCGTTTGGGCTTGCACTGGACATATCTCTTTGAGCGCACCGATTGGGATGAATTTGTGCACCTGGGCCCCATCCTCCTTTTCATGCTGTTTGGCTGCCTGTTGCGCATACTGGTGCTGGCTTACATGGAACAGCTGAGGAGTTATCAAAATAGAAAGTGGTATTTTCCGGTCCAGCCTTCCTTTTGGTGTCGATGGAATAGGCGACCTCGATCCGATGACTTCGATGTCGAAGGGCAGGAGACGGGCATCAGAGGCCATCCCTTAATTGTGCGGGCCAGGAACATTGAAAAGGTCTTCAACGAATGGATTGCAGTTAAAGATCTCAATCTGAACTTTTACCAAGACGAGATCACCGTATTTCTTGGCCACAACGATTCGGGCAAGTCGACAATCTTAATGCTGCTAGCCGGTTTCTTAAGGCCCAGCGCCGGCGAAATCACCATCAACGGCTATGACTTGGCCACCAATCAGAGGAAAGCCCGGCAATCCATGTGCATTTGTCCGCAGCCCAATGTGCTGTTCGAGAAGGTTAACGCACGATGGCACCTCCAGTTCTACTGCCGCCTCAAGGGACTGAACCGGCAGGAGGCCTCTGCCGAGACGGACAAGTATCTGGAGATCGGCCGCTTGCAGGACTTTGCCAATACCAAGGTGAAGAATCTGCCGAGCGGTATTAAGCGTATGCTCATGCTGTGCTGCAATCTGTGCGGAAACTCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0034493:FBtr0339542:2
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=0.005
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=FE(42.6=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=PD(45.9=47.2),PF0000522=ABC_tran=PU(93.1=35.4)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0308625
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
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:
TCTTCCTGCCCGTCACCATAT
R:
CCACCAGAAACCAGGACAACC
Band lengths:
135-187
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)