DmeINT0036250 @ dm6
Intron Retention
Gene
FBgn0016754 | sba
Description
The gene six-banded is referred to in FlyBase by the symbol Dmelsba (CG13598, FBgn0016754). It is a protein_coding_gene from Dmel. It has 8 annotated transcripts and 8 polypeptides (6 unique). Gene sequence location is 3R:23894174..23922973. Its molecular function is described by: chromatin binding; DNA binding. The biological processes in which it is involved are not known. 14 alleles are reported. The phenotype of these alleles manifest in: wing vein. The phenotypic class of alleles includes: viable. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of low expression. Peak expression observed within 12-24 hour embryonic stages, during late pupal stages.
Coordinates
chr3R:23921518-23922973:-
Coord C1 exon
chr3R:23922896-23922973
Coord A exon
chr3R:23921781-23922895
Coord C2 exon
chr3R:23921518-23921780
Length
1115 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTGT
5' ss Score
6.64
3' ss Seq
CAAAAATTTTAAACATACAGATA
3' ss Score
3.57
Exon sequences
Seq C1 exon
GATTTTCCGTTAAATACAGCATACAAATTCCAAAACAAATGTGCGCACTCGCCGCCGCCGCAAACGCAGCGCAATAAG
Seq A exon
GTGTGTAATGTGTCCAATTGGCCGCAAATGAAAGTGAATAAAAGTCATAAAATTCGTGAAGTTGAAATAAAAAAAAAAATATAAATTTTGTGTGCGCGTTTGCCAATGAGAGTGAGAGAGCAGGCCAGAAAGAGAGAATGAGAGCGAGCCATAATATTGCGTGAATCGAATCGAGCGACACAAAATTGTTGTAATTAATTCATATTTAATTGGCATTTGGCGTAATCCGAGTCTGTGCATAATAAAGCCCAAAGCGAAGTGCAGTCGTCAGTTGGTTGTCGTGTGTTTGTTGTGTGTCTCTTGTAGCGTAATGCGTATTGAGGTCACTTTGTACATATTATAGCAGCAGTAAACCGCAGCATAGGCACGCGTATCGTACATGTGCCTGTGTGTGTGTGTGTGTGTGCGATTGCCCAATACCCATACCAGTGCACCGAGATAGCCACCAATGTTCGTTTTCATCCCACTGCCCAAGGCGAACAGCTGCTCTACCCCCTCCCCCTCCTCTGCCCCTTACGCTCTGCTCTCGTGTTGTTTGTGTTGTCGCTGATCGCCGGAGCAGAACCGCAGGGCAGGTGGTGGCTATTGCCCACTGTGCCGTATTGTCCACCGTGCAGCAGAGGCAAACAAACAAACAAACGAACGGGCACGCATTAATTATACTACTTAAAATATGGTCTGCAAATTGTGCTAATCTTAACAACGCAGCGGAGAGCGAATGAGTGAGACAGAGAGGGAAAGGGAGATGGGAGGTGGTGTGGGTGATGCCTCCCCCTCGCGCGCTCTCTCCTTTCCTCTCGCTCACTGCCTTCGGTGTCTTCACTTCATGCTCCATTCACCTACTTTTACGCGCTCTGCGCTCTCTGCTCACCACTTTTCACTCGATTCGCCACTGCTGACGTTCGTTTTCTGAATTCCAAATGAAGTCATGAGATTGTACACCAAAAGAAATAATCAAAACAAACACTATTAAGCACTTAAGGGCTAATGATAGCACCTTTCTATGAGCGTAGCATTACGTTACCTTGATAAAGAGCACCTTTCTGTGGTCAAATGTTGTGCCACGTAAATTAATTAAAATATTTAAAATATATGCAAAAATTTTAAACATACAG
Seq C2 exon
ATATTTTCCTACCCGTGTACAAACAACACAATACGCATCTAAACGCAAACGTCGTTGTCGCATTATTACAGCTACAAAAGAAGCAGAGAGTGGAATACAAAATAATATCATTGCAAAAAAAAAGTGAAATTAAGTGTTTTAAACAAAAGGAAAAGAAACCATAAAAAAAACATGAACATGACATGGCCGCGTCTCGTTTACACAATAACTCAAAATTAATTTAATATGCTGGCAAATGAGCAAAGCGAAAAGCAAGCTAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0016754:FBtr0112888:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
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:
TCCGTTAAATACAGCATACAAATTCC
R:
TTTAGCTTGCTTTTCGCTTTGCT
Band lengths:
334-1449
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)