DmeINT0003544 @ dm6
Intron Retention
Gene
FBgn0035526 | CG1316
Description
This gene is referred to in FlyBase by the symbol DmelCG1316 (FBgn0035526). It is a protein_coding_gene from Dmel. It has 2 annotated transcripts and 2 polypeptides (1 unique). Gene sequence location is 3L:4283851..4286865. Its molecular function is described by: nucleic acid binding; mRNA binding. The biological processes in which it is involved are not known. 7 alleles are reported. No phenotypic data is available. The phenotypic classes of alleles include: some die during pupal stage; partially lethal - majority die. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of very high expression to a trough of moderately high expression. Peak expression observed within 00-06 hour embryonic stages.
Coordinates
chr3L:4285847-4286865:+
Coord C1 exon
chr3L:4285847-4285920
Coord A exon
chr3L:4285921-4286171
Coord C2 exon
chr3L:4286172-4286865
Length
251 bp
Sequences
Splice sites
5' ss Seq
AGTGTAAGT
5' ss Score
8.46
3' ss Seq
TTATCTTTCTATCTCCACAGACC
3' ss Score
13.26
Exon sequences
Seq C1 exon
GTCATGGAGGCTGAGGAGCGAAGTGGCTCCGACGGCGATGATGGCGGTCGCAAGCGATTGAGACGGAACTGAGT
Seq A exon
GTAAGTAGCTAGTTGAGTATGCATAAATTCCGTATCTATTAATGTAGCCATAATTGAACTGAGTGTGTGCCGTGGTACGAGGTAAGTAGCTGTGCAAATTCCAAACCGAAAACCTTTTAGCGATTTAAGACAATGTGCGCCTGCTGCACTTGCCCTGTGCACCGGTTGGCCATCGATGTCCACGATACCCATGCCGCCCACTGAGCGCGAACATAATAAGCCAAACCATTTTTATCTTTCTATCTCCACAG
Seq C2 exon
ACCCACTGACAACCAAGAACTTACAGAGAACGCAATGTACGAAAACGTAACTAACTTGAGCATACAGTCCGATAAAAACAGTTGAACTGACCACCAACCACCAAACAACGCAACAACCAACCAATAACCAAACAAGAACCACCACCACAACAACACTCTCCGTACGGAATGCCACATGAACCAGAACCACGGGGACTGGAGAACGCAGACTGGAAACGGAAACTGCGAACGAAGACCATACCCGGGTGAACAAACCAAACAGGCCAACGAAATCACCACACCCGTTGACTACTCTCTACCAATTGACTAACTCAAGTGGGTCTCGTACAGAGCACTCGTAGAAAGACCCATAACCCATACGACCTTTAAACGGAGCCAACGAAACCGCAATGCTCTTGCTATATACACAATATATGCATAGTGTCGTATATATGTGTACTCATACCGCTTAGGGGACTTTTGAATCTACCCGTGATACAGAAACGAACTCTCTGTGTAACTTGAACTCTTACAAACTTATTCCGACGAGATTCAGCCAAGCAATAAATTCAAACGCAATGAATTTCTTAAGAGTATCAACTCTGTCTCGTAAATTCACGCTAAGCCACAGCGTGAAAAATTATTCTTTTCATATATTAGATTTAAATAAACGATATTCTACTGTATAAGGCCAACAATAAATACACTTAAATGG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0035526:FBtr0073233:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.826 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF138931=RRM_5=PD(5.5=12.5)
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0073089
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:
GCAAGCGATTGAGACGGAACT
R:
TCGTTGGCCTGTTTGGTTTGT
Band lengths:
295-546
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)