DmeINT0032256 @ dm6
Intron Retention
Gene
FBgn0004618 | gl
Description
The gene glass is referred to in FlyBase by the symbol Dmelgl (CG7672, FBgn0004618). It is a protein_coding_gene from Dmel. It has 4 annotated transcripts and 4 polypeptides (3 unique). Gene sequence location is 3R:18367927..18372738. Its molecular function is described by: DNA-binding transcription factor activity, RNA polymerase II-specific; DNA binding. It is involved in the biological process described with 12 unique terms, many of which group under: positive regulation of transcription by RNA polymerase II; sensory perception; response to red light; ring gland development; response to stimulus. 61 alleles are reported. The phenotypes of these alleles manifest in: cell projection; neuron projection bundle; endocrine system; adult DN period neuron; gut section. The phenotypic classes of alleles include: phenotype; increased mortality; behavior defective; cell number defective. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of low expression to a trough of extremely low expression. Peak expression observed during late larval stages, at stages throughout the pupal period, in stages of adults of both sexes.
Coordinates
chr3R:18367927-18370835:-
Coord C1 exon
chr3R:18369343-18370835
Coord A exon
chr3R:18368947-18369342
Coord C2 exon
chr3R:18367927-18368946
Length
396 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TGCTTTTTTGGTGTCCACAGATT
3' ss Score
10.86
Exon sequences
Seq C1 exon
CAAGAGTGCGCCGCTTCCTGCGTCGGCTGCCTATCCTGCCAGGGCAGCACCGCCCTGCCCATCTCCTCGCTCACCAGCAGCGACTTCGACTGCGGCGGCTGTTTCGATCCCACGATTGGAGTGGGCGTGGGCATCGGTGGCGGCCACATCCAGATCAGCACGACACCACCGGCGAGCAGCGGCAACGGGAGCAGCAACAACGGTGCCGGAGGAGGCTCCTCGGGTAATCACGGCTACTGGAGCACCGACGAGATGGCTTCCACATTTCCCGGCCTACCGCCGCTGGACATCGATCCGCTGCCCAGCCTGTTCCCATTCTCGCCCTGCGGCGCTTCCTACAACTTTGCCGCCGGCAATCCGCACCAGGCCGCCTCACTCTCCTACACAGTGCATCCGCACCAGATGCTCATTTCGCCGAACTCCCACAATCATGGCCAGATGCACTCGCAGCACCAGCAGCACCAGCACCAGCAATCCCAAGTCCAGGCATCGCACGTAGGCAACTCTCTCCTCCAAAGCAGTGGTGGCAACAATATCGGCAGTAATGGTAGTGCCGGAGGAGTGGCCAACGCTGCCAGTTGCTACTATGAAACCAGTGCTGGAACGGCCGCACCACCTCCTCCTCCGGCGGCAGCCATGTATCCCAGCATGAGCGTGAACGTCAGCATGAACATGACCATGCACCATGGCTACGGTGCCGGTGATGCAGGCGGCGTGCCAATGCAGTGCTCCCAGATGAACTGGACGCCACCCAGTAACTCCACCTCGGCGGCAGCAGCAGCAGCGGCGGTAAATGTGCTATACCCACCGCTGCTGAGTCCCGGTCACTATCCTGCCTCGGCCACATATTCCTTTACAGCGGATTTTCGGGCACCGGCTCCCACGGGTCTGGGTGCCCTGCCACCGCTGACGGTGGGCGAAAAGGAGTCGCCATCGCCGCCGGCCAACTCCTCTTTGGCTGGCTACTATCCCACGGGGGTGGGCAATCAGGGATACACACCGCCCCACAAAAGTCCCACCAGCTATCAGGCAGCCGCCCTGGGCTTAAGTCTATCCGCCTTCGAGGACGAGGAGGATAGCAACGAGGATCTGGACGGCGATGAGGGCAGCAGTGGCGGCGAGATGAAACCCAATCTATGCCGGTTGTGCGGAAAGACATATGCCCGGCCCAGCACGCTCAAGACCCATCTGCGGACCCATTCCGGCGAAAGACCCTATCGATGCCCCGACTGCAACAAGAGCTTCTCGCAGGCAGCCAACCTGACGGCTCACGTACGCACACACACCGGCCAGAAGCCGTTCCGCTGCCCCATCTGCGACCGGAGATTCTCGCAGAGTTCCAGTGTCACCACGCACATGCGCACCCACTCCGGCGAGCGGCCGTACCGCTGCTCCTCGTGCAAGAAGTCCTTCTCGGACAGCAGCACCCTCACCAAGCACCTGCGAATCCACAGTGGCGAGAAGCCCTACCAGTGCAAGCTCTGCCTGCTCAG
Seq A exon
GTGAGTCCGGGATGGGGGATTTACTTACACCGTCCTTCCTCATTCCTAAACGAACGAAAATGGTTTTGCTTTTACTTTTACGTAAACCCTTAAAGCTTTAAAGATAGTTTAATAATTTCTATCGTTTCAATATAAAACTAACAACTTGAACAAAACTGAGACTGTTGCAAGCTTAAAAAAAAGGAAAACCAAAGATAATATGCATCATTCATTTTCATTCATGCATTTTCGTAAGATTTTCAACTTCAACTAAAGAACTGAAATTAAATGAAATAATAATTGTTTATTCAAATGTAATGCTAAAGATGAAAATTACCCCTTAAAAAAGGCTTAGGCCCCCAAAGAGCAGTCCTGGAACGTTATACATCGAGTTAATTGCTTTTTTGGTGTCCACAG
Seq C2 exon
ATTTTCGCAGTCGGGGAACTTGAATCGGCACATGCGCGTCCACGGCAACAACAACAGCAGCAATGGCAGCAATGGGGCAACCGGAGTTGGTGGAGAGTCCTCCACCGGCAGCGGAGTTGGTGGTGGCAACAGCCTGCTCACATGACAAAAGCCAAGGAGTGCAGGAGGTTTCCAGCATTACCACCCCCCGCACACCCACCACATGCACCACCAGCACCACGCCCATCACCATCACCACGCCCACATGGGTAACTACGACTACGGGAACTACAGCATCGGCGATTATACTCCACCCGGAGCCACACAAAACTATTCAGGGTATTATTTCTGCGCACTCAACAAGGCGCCCAAGTTCGAACGATTCTACTAGGGACTAAAATCTGGAGGATCCCATCTGGATAAGAAACCTTAAAGGAGGACCACTCAGTGAATTATACGGGGATAGTCACTCTATCGCTGATAAATACAATAATGTATATGCCATACTCAACATTGCTGTAGAAAAATAATTTGGGTTCGTGTTAAATTGAAATCCTAATTGAACATAACGATGTAATAATACTCATAACCCAAATCCGCATCCAAATGCAGTTAAAAATGCTCAAACAATACAAATCTGAGGAATCGCGGAGAATCGAACAAAAGTAGGCCTAAGAGCTGCACTGTACATACTTATACATACTATATTTATTATATTCGCTTAGCCTAATATGCATTGAATCCAAGTTAGTTCATCCATTAAATAAGGTAGTTCAAAACACGCATAAATCTATTCCAAATTAGCCAACGAAATAGGATTTAAGACGGATATGAGTATGAATCATAAGACCAAACAACACAGCAGCACCCAAAACGAGAATATTTAAATTGGAATTGCCAAGGCATTAAACCCATAAACACCTGTATACGAATATAGAGTCCTAAGCTTAAACTAGACGTAGATGTAAGACAGGTGCTTTGATCTAAGCCAATTTTGGAGTATATAAAGAAAATAATAAATATACGAAAATTAAATACAGT
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0004618:FBtr0083584:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.467 A=NA C2=0.561
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=WD(100=5.2),PF134651=zf-H2C2_2=WD(100=5.2),PF134651=zf-H2C2_2=WD(100=5.2),PF134651=zf-H2C2_2=PU(84.6=4.4)
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=5.2),PF134651=zf-H2C2_2=WD(100=5.2),PF134651=zf-H2C2_2=WD(100=5.2),PF134651=zf-H2C2_2=WD(100=4.6)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0303075
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0083005
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:
CGGCGAAAGACCCTATCGATG
R:
ATTGCTGCTGTTGTTGTTGCC
Band lengths:
355-751
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)