Special

DmeINT0008457 @ dm6

Intron Retention

Gene
FBgn0028539 | CG31731
Description
The gene Engulfment ABC Transporter in the ovary is referred to in FlyBase by the symbol DmelEato (CG31731, FBgn0028539). It is a protein_coding_gene from Dmel. It has 3 annotated transcripts and 3 polypeptides (2 unique). Gene sequence location is 2L:13784084..13790562. Its molecular function is described by: lipid transporter activity; ATP binding; ATPase-coupled transmembrane transporter activity; ATPase activity. It is involved in the biological process described with: lipid transport; transmembrane transport. 9 alleles are reported. The phenotypes of these alleles manifest in: follicle cell; egg chamber; nurse cell. The phenotypic classes of alleles include: lethal - all die before end of pupal stage; fertile; increased cell death; some die during pupal stage; viable. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of moderate expression. Peak expression observed during late larval stages, during early pupal stages.
Coordinates
chr2L:13785797-13786496:+
Coord C1 exon
chr2L:13785797-13785975
Coord A exon
chr2L:13785976-13786279
Coord C2 exon
chr2L:13786280-13786496
Length
304 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGT
5' ss Score
9.11
3' ss Seq
TTCTTTATTCTAAACCATAGCCC
3' ss Score
5.75
Exon sequences
Seq C1 exon
ATCGCGAATTCGGTGCTGTGGATGTATTTCGCGTAATCAAAAGCAATTCCTCAACGATGTTTTCGGTCTACGTGGTTCTCGTCTTTCAATCCTTTTTGTATGCCATGCTCTACAACTATTTGGGTTGTGTTTTTCCCGGTCCTGGTGGACTAAAGCGACCGATGTTCTTTTTCCTAGAT
Seq A exon
GTAAGTACTATTTCCGAAGTCCGAACCAATGATATTTAATGTCGGTATCAGATCAAAATTTTCGCTCGTGTGATATATTTTCTTATCTCGACATAAGCTTCAATTCAGTTCGTATTATAATTTTATGTTCATTATAATCAAGTATGAGATCAGATGCAGTAAGACTCTTTATTTCAATAGGTTACTTTGATCGAATCTTGTTTATTGAAATCGGTTAAAATGTCCTTTTTACAGTTCCGTATCGGTTATCGGCTGCATAACCAAACAGGGTTAAATTAAGAATTTTCTTTATTCTAAACCATAG
Seq C2 exon
CCCAAGACTTACATGAAACGACAACGCAACGAATACACGACGACACCGCGCGGCACTCATGCTATCATAATCACTGAGTTGTGCAAGAAGTTCCAGACAAGCAAGCGCGATACGCTAATTTCGGACAACTTGAACATGACGATCAACAACAAGGAGATTACTGTCCTGCTGGGCCACAATGGAGCTGGAAAAACAACCATGATGAACATGATAATGG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0028539:FBtr0110941:6
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=0.041
Domain overlap (PFAM):

C1:
PF126982=ABC2_membrane_3=PD(10.3=60.0)
A:
NA
C2:
PF0000522=ABC_tran=PU(22.5=43.8)


Main Inclusion Isoform:
NA


Main Skipping Isoform:
FBpp0110241


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:
TGCTGTGGATGTATTTCGCGT
R:
TTTTCCAGCTCCATTGTGGCC
Band lengths:
358-662
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)