DmeINT0019561 @ dm6
Intron Retention
Gene
FBgn0263219 | Dscam4
Description
The gene Down syndrome cell adhesion molecule 4 is referred to in FlyBase by the symbol DmelDscam4 (CG42330, FBgn0263219). It is a protein_coding_gene from Dmel. It has 6 annotated transcripts and 6 polypeptides (3 unique). Gene sequence location is 3L:8238647..8282398. Its molecular function is described by: cell-cell adhesion mediator activity; identical protein binding. It is involved in the biological process described with: homophilic cell adhesion via plasma membrane adhesion molecules; axon guidance; cell adhesion; dendrite self-avoidance. 17 alleles are reported. No phenotypic data is available. The phenotypic class of alleles includes: viable.
Coordinates
chr3L:8276827-8277583:+
Coord C1 exon
chr3L:8276827-8276973
Coord A exon
chr3L:8276974-8277430
Coord C2 exon
chr3L:8277431-8277583
Length
457 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGT
5' ss Score
11.81
3' ss Seq
CCTCGGATACACGTGCTCAGAAA
3' ss Score
2.66
Exon sequences
Seq C1 exon
TTCCCTCATCGCCGCCTGAATCGCCGCAGTGCGATGTCCTGGGCTCCACTTCGATCTATATCACCTGGTCACCGCCGGACATTGATGGCCAAAATGGAAAAATCAAGGGCTATAAAGTGTTTTACATATCGGTGGACGAGCTGTACG
Seq A exon
GTAAGTTCGCCTCAAATTTCCCCCAGATATAGTACCTTATTTAAAAGGCCATTGCGAAATAAGCTAATATTTTTGTAATTTTCACAAAATGTGTGATTATGATGAGATTCGTTGTTTCCTTACCATTATGAATAATTTGCAATTAAACATCTCATCAGCAATAAACTACGGCAGTTTCATTTGGATTCCACTGCATTTATGCCACGATGCCAACGATGGTCAATTACCACGCTGGAATGTGACCAGAATGCTATCGACCAAATCGAACGCCCCTTGGCCAACTTATTTTTGAAATTTATGGCACTCGGCAATTAATTAGCCCACTTCATGGTCCTCATATTTCCAATCAGTGCTAATTGTTCTCGTCTCTCCTTCTCCTTCATGCTGCTTCATCTGTTCCTGTTTCTGCTTCTGTTCATGCTGCTCCTGCTGCACTGCCTCGGATACACGTGCTCAG
Seq C2 exon
AAACCGATCCGGAGGTTGTCAAGTCAACAAATCAATACGTCACCATCGAGAATCTGCGCAAATACACCAACTACACGGTCTGGGTTTTGGCTTACACCAAAGTAGGCGATGGCATGAAAACCAAACCGTTTTATTGCCGCACCCACGAGGATG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0263219:FBtr0299839:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.180 A=NA C2=0.019
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(52.9=92.0)
A:
NA
C2:
PF0004116=fn3=PD(46.0=76.9)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0305766
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0289117, FBpp0289118, FBpp0289119, FBpp0305767
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:
CCCTCATCGCCGCCTGAAT
R:
CTCGTGGGTGCGGCAATAAAA
Band lengths:
294-751
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)