DmeINT0011606 @ dm6
Intron Retention
Gene
FBgn0261998 | CG42816
Description
This gene is referred to in FlyBase by the symbol DmelCG42816 (FBgn0261998). It is a protein_coding_gene from Dmel. It has 2 annotated transcripts and 2 polypeptides (1 unique). Gene sequence location is 3L:17792088..17797594. Its molecular function is described by: ATPase activity; ATPase-coupled transmembrane transporter activity; ATP binding; lipid transporter activity. It is involved in the biological process described with: lipid transport; transmembrane transport. 9 alleles are reported. No phenotypic data is available. No phenotypic class data is available.
Coordinates
chr3L:17792880-17793541:-
Coord C1 exon
chr3L:17793253-17793541
Coord A exon
chr3L:17793190-17793252
Coord C2 exon
chr3L:17792880-17793189
Length
63 bp
Sequences
Splice sites
5' ss Seq
ACCGTGAGT
5' ss Score
9.4
3' ss Seq
GGCCTTAAAAACGGAAACAGGAG
3' ss Score
-1.24
Exon sequences
Seq C1 exon
ATCCCATGACATGGCCTGATATGCTGGTCATGCTTGGGACTGCCATCATACTCTTTCTGTTGATAATGTTTTTTGAGTACGGCAGTTGTGTTTGGTACAGATGTAAGGGGTGTTGCCCATACAGCTCAAAGGGCTCAATTGAGGATCCCAAAGTGTCCAGGGAGGCTGAGAAAATCAGAGCTATGGATGCTGATCAAATAGGAACTCGGGCATTGGTCGTCAATGGGGTTTCAAAGAAGTATGGCTGCGATCAACTAGCCGTCAATAACATATCCTTTGCTCTGAAACC
Seq A exon
GTGAGTATACTCAAACGCGTATAGATTACAATGTCATGCTCTTGGCCTTAAAAACGGAAACAG
Seq C2 exon
GAGTCATTGCGTGGGACTTCTCGGGCCCAATGGAGCTGGAAAAACAACCACGTTCAAAATGATTGTTGGCGAGCATTCGATCGACAAAGGAAACATATATATCTCAGGCTACAGCATGAGGATGAAACGGAATAAGGCGATGAAGGAACTCGGATACTGCCCTCAATCTGACTCCTTTTTCGAGTTTCTCACTGGCCGCCAGTTGCTAAAAGTCTTCCTTCTGATATGGGGCTTTCCAAGCAAAGACTTGAATAAACGATGTGAAAAACTGGCCGATCAGTTCGGTTTCAGGAAACACTTGGATAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0261998:FBtr0307890:7
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:
PF126982=ABC2_membrane_3=PD(5.9=23.7),PF0000522=ABC_tran=PU(6.2=9.3)
A:
NA
C2:
PF0000522=ABC_tran=FE(71.5=100)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0300324
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:
CTGCGATCAACTAGCCGTCAA
R:
TTTGTCGATCGAATGCTCGCC
Band lengths:
133-196
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)