DmeINT0019499 @ dm6
Intron Retention
Gene
FBgn0033159 | Dscam1
Description
The gene Down syndrome cell adhesion molecule 1 is referred to in FlyBase by the symbol DmelDscam1 (CG17800, FBgn0033159). It is a protein_coding_gene from Dmel. It has 76 annotated transcripts and 76 polypeptides (75 unique). Gene sequence location is 2R:7317924..7381899. Its molecular function is described by: identical protein binding; antigen binding; protein homodimerization activity; axon guidance receptor activity; cell-cell adhesion mediator activity. It is involved in the biological process described with 16 unique terms, many of which group under: central nervous system development; response to other organism; cell-cell adhesion via plasma-membrane adhesion molecules; nervous system process; developmental growth. 159 alleles are reported. The phenotypes of these alleles manifest in: cell projection; plasma membrane bounded cell projection; neuron projection; mushroom body beta-lobe; larval neuromere. The phenotypic classes of alleles include: increased mortality; cell migration defective; phenotype; behavior defective. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of very low expression. Peak expression observed within 00-06 hour embryonic stages.
Coordinates
chr2R:7319554-7321649:-
Coord C1 exon
chr2R:7321583-7321649
Coord A exon
chr2R:7320765-7321582
Coord C2 exon
chr2R:7319554-7320764
Length
818 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
ATTCATCTCTTTCCGTGCAGAAA
3' ss Score
8.88
Exon sequences
Seq C1 exon
CAGTGAAGCGATCTCCACAACCGAAAGATCAGCGCACCACCGAAGAAATGCGCAAACTGATAGAAAG
Seq A exon
GTAAGATCAGACCAATGGGCCCGACCCTACATATGTATTTACCACCCGACACGTAATTAACCAGATGTTAAAGCATTTGCACCGAAGTTGATATACATATGTAGTTCTGGTGCAGTTCCCCTGTCACTAATCGCAATCTAACAATCTTCCCCGTCTTTATTTACCCACTTTCCTAACTCTGAATCGTATGATCGCTGACACTAGTCGACGACAGTTGTAAGTCTTGAATAAGGAACCTACCAATGTGACTAGCCACCACGACTATCCTGCATGCCCACGCACCAATCAATACTAACCCAAAGTGCATTCAGTACTCACATCTATGTATAAACCGTCTTAAGTTCCTGTTTGTATATTCATTTATACATTGGTTTTGTCTTTAATCTTTGATCTTTTCGTTTGGTTTTCGGTTCGACAGCAAATCACAGTTGAATGTTTTGAAACCTTTTGATAAACTTACTCCATGCGATAAGCAGACCCACCACATATCTGTCTATCACGAAATACTTAAGTGTTTCCATAAATACTCGTATTAACACTTTATTGCAGCTTTGTGCTTGGCCTCAGCTTGCCAAATCAAAAAGAACCAGAAGTAAACCATGTTAAGCCACGAACAGAACATAAAGACACGGCCAATGGGGTGAGATGGGATCTGGCCGGAGATAGAGATAGAGATAGAGATACTTGGAAAATACTTCAAAGATCGCCCGAAAGATCCCATCTCGACTCTTGCAATGCTTTGGTTGCAGCATAAACATAATCCAACAAGTCCCGTTTCCAATGCTTCCTACTAATCAGATTCATCTCTTTCCGTGCAG
Seq C2 exon
AAACGAAACCGGCCCAAAACAACTCCAACTCCAACAAGCAAATGGCGCAGGATTCACAGCCTACGATACTATGGCAGTGTAATTTGTAAGCGCCCTCTGCGGCGGTGGGCGTGGCATTTTAGCTTAGTGTTTTAGGTGCATGAAGTGCGTGGGAGTTGAATGACACTTAGAGACACAGGACACAGATACACACAGACAGATCATCAGGACACAAGGAAAGAGATAGAGAAAGAGAGGGAGTTATATACCGAATATACACGTAAAATATTCAACTACTTCGAGTAATTATAGCGAAGGAATGCAAGTTTCAAGAAACATATTTATATTGTCTATGCAAGCAGCAAACCAAACTTACATAAAGTATATAAGTACATTCAATGGATAACTACTATAAGAGAGTGCTGGAGACACTGAAGGAAATTACTCAAGTTATTCGAGAGGAACAGAAAACGAAATCTCAAGATCAAGATCATACTTACGTATTCGAACTAATTTTCAATAATGTACTTTAGTTTTAAGCGGTGTCTACCGAAATATCAGAGCAACAGCAACTGAGATGGATTCTTGTGTGTAAGAGGAGATGATTCGAAATCTGTTTGTGTAAACTTTTGCCATCTATGCCAGGAGCAGAAAACTCATCCTTTGCCTAGCCTAAGTCAAAGTCATAATATTAACTCGTCTAATTGATATATTTAGTCGTAACATATGCGTAATATGTATGATTTCTTCCTATGCATTTTATAATTCGTATGGACAGCGCACATTTGGAGTTTTGTTTGCGTTTTGCGTTGACTTGTGATGATTGTTAATTTACAGAGCTTTGTGAGTGAGTACTTACGATTGTGCTCATTACTCGCTTTGTTCTTTATTTACAGACAAGTGATTGTCCTATCTTAGTTCGCCCTTATTTTTAATTCAAAAATGCGCTTCCAACAGAACAAATCGAAACTGTTCAATGCACAAATCGCAGCCACAACAATTGAATGTATTATACAAGATCCCCAGGACACCGAAAAACCAAAACCCCTAACCCGAAACACAGATACACTCAAGCACGATTTATTAAACCAATTCTGATATAGACCGTTCTGAACATGAGTTATACGCATTTGAAGCTTTAAGAGAACCTGAAATTGTTTATTTCACTTCATTTGATCTATCCTAAGTTATTAGTTCATAAGTTGCTAAATATATGATTTTGATTTTATTTT
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0033159:FBtr0089016:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.991
Domain overlap (PFAM):
C1:
PF123553=Dscam_C=PD(14.5=78.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0110354
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0088088, FBpp0088090, FBpp0088091, FBpp0089327, FBpp0110341, FBpp0110342, FBpp0110343, FBpp0110344, FBpp0110345, FBpp0110346, FBpp0110347, FBpp0110348, FBpp0110349, FBpp0110350, FBpp0110351, FBpp0110352, FBpp0110353, FBpp0110355, FBpp0110356, FBpp0110357, FBpp0110358, FBpp0110359, FBpp0110360, FBpp0110361, FBpp0110362, FBpp0110363, FBpp0110364, FBpp0110365, FBpp0110366, FBpp0110367, FBpp0110368, FBpp0110369, FBpp0110370, FBpp0110371, FBpp0110372, FBpp0110373, FBpp0110374, FBpp0110375, FBpp0110376, FBpp0110377, FBpp0110378, FBpp0110379, FBpp0110381, FBpp0110382, FBpp0110384, FBpp0110387, FBpp0110389, FBpp0110391, FBpp0110392, FBpp0110393, FBpp0110394, FBpp0110395, FBpp0297683, FBpp0297684, FBpp0297685, FBpp0297686, FBpp0297687, FBpp0297688, FBpp0297689, FBpp0297690, FBpp0297691, FBpp0297692, FBpp0297693, FBpp0297694, FBpp0297695, FBpp0297696, FBpp0297697, FBpp0297698, FBpp0297699, FBpp0297700, FBpp0297701, FBpp0297702, FBpp0297703
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:
CCACCGAAGAAATGCGCAAAC
R:
TTGAAACTTGCATTCCTTCGCT
Band lengths:
342-1160
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)