DmeINT0015298 @ dm6
Intron Retention
Gene
FBgn0027567 | CG8108
Description
This gene is referred to in FlyBase by the symbol DmelCG8108 (FBgn0027567). It is a protein_coding_gene from Dmel. It has 3 annotated transcripts and 3 polypeptides (1 unique). Gene sequence location is 3L:9864639..9870674. Its molecular function is unknown. The biological processes in which it is involved are not known. 14 alleles are reported. The phenotypes of these alleles manifest in: sarcomere; embryonic/larval somatic muscle; Z disc. The phenotypic classes of alleles include: lethal - all die before end of pupal stage; some die during pupal stage; female sterile; lethal - all die during larval stage. 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 00-12 hour embryonic stages.
Coordinates
chr3L:9867314-9868935:+
Coord C1 exon
chr3L:9867314-9867744
Coord A exon
chr3L:9867745-9868253
Coord C2 exon
chr3L:9868254-9868935
Length
509 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
TTCATTCCACCCAAATGTAGCTC
3' ss Score
5.64
Exon sequences
Seq C1 exon
GATTACCGTCGCACGTCCTCGTCGAATGATCGCAGCGATCGACCCTCGTCCTCGTCGCAGAACATTGGCTCCTCGTCATCGAACTATCATCAGCGGAGCAGCACCGGCGGTGGTGGTAATAACGGCGGGAGCTCGAGCTCCTACCGCCCACGCGATGATTCCACCAGCGGCAGCCGGCATCAGCGGGACGGATCGATGGGTCCTCCGAAGCGGATGATGCGTAGCGTGGCCGGCACCAACTATATATCCCGACCCCGTGGCACAATGTCGATGAGGGGCGGCATGATGCGCACCGGGATGCGGGTGGGAGGAATGCGCGTTGTGCGCACCAGGGTCAACGAGTCGAATGACCTGCGCACCATGCGCCGCCAGCTGCTCTATGCACAGCAGAAAGACCGGGCTCGCCTGCTCAAGATTCAGCAGCTGAAAAG
Seq A exon
GTAAATAGACCAAATTTCAAAAAAAAAAAAAAATCAAATTAAATCAAAACCCAAATGAATATACAAAAATCAGAGTTACGCTATTGTGCACCAATTGAGGACGCAAAGAACTATGAATGCAATCCGTGAGATTGACATAATAATGTGAACGAACTGTGAGATTCAGTGAGGCATCGAAAATCTGAATGCGAAAAGGAGGAGGGAGGAGAGCACTTGGTGCAAGATTATCCAAGCGGCCTCCAGAGAAACTCCCATCTTCGTAGATCAAATACTATCCATGTGTATATAGTTGTGTAACTAAGTAGAACGAATTGAAATGTACCGATAAAAAAGACACCCGACACTTCTTGACAAGAACGTATTTTGTTAGTTTACCACCCAGCTTGTTCTTATGTACTTAAAAAAAAAAAAAAACACAAAATTTTGAACTTGCCTTCAACCAAACAAAACAAAACCATCCTGCCACCCTGACATGACTTCACATTCGAATTCATTCCACCCAAATGTAG
Seq C2 exon
CTCGTTGCGACGACAACGCCAGGGCGGGAATTCCAGCGACGATTCCAGCGGCAAAGAGGACAAGGACGGCGAAGATGCTGAGAAAAGCAAGAAGAAGAAAGGCAAGGACAAGGACGCCGATGGAGGCGATGAATCCGACGACGACGATGACGATGAAGAAGACGATGATGAGAAGGACGAGAAGAGCAAGAAGACTTCGCCTGGTAAAAAACGCAACAAGTCGGCCAACAACGAGGACAAGAGTGAGGCCGAAGGTAACGATGATGACGACGATGATGATGATGAGCACGGTGATGGCGATGACGATGATGACAAGGACCTAAATGAGTCCGATCCCAAGAGCGCCAAGGCCGATGACGCCTCCGATGACGAGGATGTCAAGGTGAAGGGCGACGGTGAGGACGGCGATGGTGACAAATCGGACGAAAAGGCCAAGTCATCGGTCGAGAAGTCAGGTAAGAAGAAGGACAAAGACGACGCGAAGGACTCCAAGTCCAAGAAGTCATCATCCACCAAGAAAGAGCGCACGTCTCGCAAGGACAAAGACAAGGAATCATCGGGCGATGATCGTAGCAAGGAGCGACGTAGCTCCCGTCATCGGGATGAGGACCACAACAACCGCAAACGCAGCTTCATCAAACTCATTTGCGTCCATTGCCGCATCAAGTGTGTTACATTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0027567:FBtr0076339:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.917
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0076068
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0076069
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:
CCAGGGTCAACGAGTCGAATG
R:
GCCTCACTCTTGTCCTCGTTG
Band lengths:
352-861
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)