DmeINT0034709 @ dm6
Intron Retention
Gene
FBgn0004227 | nonA
Description
The gene no on or off transient A is referred to in FlyBase by the symbol Dmel
onA (CG4211, FBgn0004227). It is a protein_coding_gene from Dmel. It has 5 annotated transcripts and 5 polypeptides (3 unique). Gene sequence location is X:16361569..16371547. Its molecular function is described by: transcription regulatory region sequence-specific DNA binding; mRNA binding; nucleic acid binding. It is involved in the biological process described with 6 unique terms, many of which group under: multicellular organismal process; response to abiotic stimulus; response to external stimulus; male courtship behavior, veined wing vibration; mRNA processing. 47 alleles are reported. No phenotypic data is available. The phenotypic classes of alleles include: behavior defective; lethal; visual behavior defective; phenotype. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of moderate expression. Peak expression observed within 00-12 hour embryonic stages.
Coordinates
chrX:16365587-16368526:+
Coord C1 exon
chrX:16365587-16365642
Coord A exon
chrX:16365643-16366903
Coord C2 exon
chrX:16366904-16368526
Length
1261 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
GTATTTCCTTGCTTGAATAGGAC
3' ss Score
8.51
Exon sequences
Seq C1 exon
GCAATAACAATAACAATTCCACAATGATTGGAAACAATGCTGCCCCCAACACACAG
Seq A exon
GTATGTCCACATCCTAAATACTATCCAACGAAATATTCAGTAACCAATAGATCTGTGGAGCTACAAGAGCTACTGTCTATGATACCCTTCATGAAACTATAACCCAATACATATACTTTTCTCAAAGTTAATATAAATTATTAACATACTCCTCTGGCAATTTATCAGATCAGGTCTATTTCGAAAAGTTACAACAGTTTTTTTTTTTTGGGGGGGGAGGATGAAGAGATTCTAACGAACTTAATTGATTAAATGGGGCGGAAAGCAAATTTATTCGATGTTAAACAAGAGAATTATACCTTTAAAAACGCTGAGGCTAAGCGTTAACAATCATTTGAAAACTTCAAAGCTGGGATTTGCATTCATCTCTGCTCTTTGCAACTAAATATGTACCGAGTGGCTAAAGAAAACTGCCACCTTTTTTTGTATTAGACAATGAAATTGATTGATTTTGTACTCAGTTCATCCAAATGGATCGGTTCAATGTGATTATTTTGATTTGCTGAAATCGCAAAGTCAAAAGAAGTCGCTACTCACCGCGAAATAATTTAACATCTTAATCTTAAATGCAAGTTTATCTTTCGGGTTTGGAGATTGTGGTAGTAGGCACTTCTCATTTTGAACTAGAGGTTCATAAAACCTCGGAACACATTTGTGTTATCTTCTACAAAGAGTAGCTATCACCTTTGTGAGTAGCTATCTGTCGAAAACATTGGAGTGTTTCGTAAGACAGCAGTTACAACATCCTTCGTCCAATGGCGAAATCTTCGTTAACTTCCATCTGCTCGAAGCTGTTAGTTTAAACAATAGTTAACTATGCCAATTACTTGAATAGAAAAAAAAAAGGGTTTTCATGTTTGCTGGTAGCTGCTTTCATCAGCCATTCTGTTTATAACTGCAGGTCTGGGGAAAAAAAAATATAAATTATATATAAAATCTGGAATGCATTTAAGACTTGCGGTTAGATGGGGGGGCGCTTCAAGCTTTATATGTACTTTATTTGATTTATTTAATCATAAAAACGAAGTCAATTCTTTGTGCATACAAATCAGAAGTTGGGAATCGAGATTTGAATCGATATATTCGAGTTTGGGGGCTATGTGCTTAGTTATTTAATATTTGGAGATTGGGTGTGGTGGATGGCCACAGATACAAATTTTAACATAATTCACCCTTTGTTCTTTTTTTTTTTTTTTTGAATTGGGTTCCTCACGGCTAATGCAACACTCAATTGAACAATTGTATTTCCTTGCTTGAATAG
Seq C2 exon
GACTCCTTCGCTTTTGAATTTGGGGTTAACAATATGAACCAAGGCGGCAATCAACGTGGAAATAATGGCGGAGGAAATAATGTCCCATGGGGACGTCGACGTTTTTAGACACTGGATCGATCGAACAATATACATACATATAAGGATGAGATTTGACGTACTCTCAAATATTTGATTGCGTTTCACATTTTAACTTGGCTCGCTAGTGCGCGCGATCAGAATGAACTTGCTTAAAAGGATCCCTTTTTATCGCATGCACCCAAATATGTTTTGATTTAATATTTGGTCAATTATTATCAATCGTCTATCGATCCTAAAATTTTAAGAGTAATGACACGCAAAGGATGAACCTTACAAAAATAATAGTATACAATCTGAATCCCAAAATGAATGTGCAACAATGCTGCACCGAAAAGAAAAACGAAATCATTGCGTACATATACTTAATCATAACGATAATTTAAGATTATGTATGCGGCGAACTACATTCTCCAGTAATTTAATTCTTTTTTGTCCACCATACAAATTAAATATACATAAAGATATATTCCAAATCGATTTATTTGAACATGAAAAACGCAATATTAATTCAAAAGAAAAGAAAAGAAAAAGAAAGTTAAGAACACTTCGAGAATCTGGTGAGTATTCCGGATGAGCGCATGGACTTGATCTGGATCTTGGTCTGGATATCTCATCTCATTCGATGTCCACTAATGGATGATCCTTCTGTTGTGCAGAACTATTCTAAGCTTTCCCACTATTTTGTTAATGATTAACAAATAAAATGATTAACAACTTTTTTTTCTGGCTGTAGTCGAATCGCAACTCAATTTTTTTTTTTATTCAGTCTAAATAATGTTTTTATTTTTCTTCATATGTTTTAGTATCTATTTCAAGTATTTATCGGAAGAATTAAATTAATTTCGGTAATATGACATGTGTAAAATTTTGTGTAATTTTCATTTTTTTTTTTTACATTTTGTCTTTTACCCCTTTGTTTTTTGTAAAATATTCTTGCTATTTTGTATTTGATAGTAATATTTAACGGAATTGCATATCTTATCTAATATGGAATTTTCGGGAAATGATATTCGATTTTGGGAAAAATGCAAGGGAAAATCATTCAAACGCTAGTGTATTTTGGATATACATTTCTCACCGATTTTGGATATTATCTCAAGTACAACATTATTTAGGATAGATTTTGATAGTTTTACGCCGTTTTCTTGCAATGAAACCGACAATCTCAGACTTTGACCAAAATTTGATGAATAATACTTTGTGTTTTATACCCGTATACCTTTCATGTTGCATAAATATACATTGGCATACCTACAAAGCAACAAATTTAAATGTAGTTGTAATTAATTGTCATGCTAATAATTTAATTATACTTATATAAATATATATATATTAGTATGTTCAAAATACTACTACTTTAATCAAACAAATATGGCACTTTGAAAGCAAACATAAAATATTTACATTTTGATCAGTTCTGGGTGTTGGCACCGAAAATTAATTTTAGTAAATTAATAAACAATTCGAAGTGTATAGAATATCTTTAATTTTTTTCAATTTTGATGCAAATGAAAAATAAACGGAAATTGACTTCCAAATGCG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0004227:FBtr0074232:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.897 A=NA C2=0.880
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0074011
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0309274
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:
AATGCTGCCCCCAACACAC
R:
TCCTTTGCGTGTCATTACTCT
Band lengths:
366-1627
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)