DmeINT0005305 @ dm6
Intron Retention
Gene
FBgn0031144 | CG1529
Description
This gene is referred to in FlyBase by the symbol DmelCG1529 (FBgn0031144). It is a protein_coding_gene from Dmel. It has 4 annotated transcripts and 4 polypeptides (2 unique). Gene sequence location is X:21028652..21031950. Its molecular function is described by: RNA polymerase II cis-regulatory region sequence-specific DNA binding; DNA-binding transcription repressor activity, RNA polymerase II-specific; sequence-specific DNA binding; zinc ion binding; DNA-binding transcription factor activity, RNA polymerase II-specific. It is involved in the biological process described with: negative regulation of transcription by RNA polymerase II; regulation of transcription by RNA polymerase II. 8 alleles are reported. No phenotypic data is available. 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 00-06 hour embryonic stages.
Coordinates
chrX:21028652-21031950:-
Coord C1 exon
chrX:21031587-21031950
Coord A exon
chrX:21031534-21031586
Coord C2 exon
chrX:21028652-21031533
Length
53 bp
Sequences
Splice sites
5' ss Seq
AGGGTGGAT
5' ss Score
-2.16
3' ss Seq
CTGGATTAATACTTTCTTAGTTC
3' ss Score
2.45
Exon sequences
Seq C1 exon
CGTGTGCATCACAGCAGGAAAATTTAAGAGGCGGAAAAAAGAACTGGATTTCCACGTAGAACGTTGCCTTTAACGCGCACGATTCGTGGCGATGTTCACCACATTTACGGACCTCGCGCGCCTGTGCAGGATTTGCCTGCGTCATCTGCGCGACCGCGACACCCACTGTCCCGATCCGCGACTCATCGCGATTCTGCAAAAGTTGCTGGACATCGACATATTGAAGCAGCCGCATGGATTTCCCACTGAGATCTGCAACCTGTGCCACAACGCGGTGGTCTACTTTGACGAGCTGCGCCAAGTGGCAAGGGAATCCAGCCAGAAGCTTATCGGATGGCAGCCAGTGGACATCGCGGTCGACAGG
Seq A exon
GTGGATATATATGTCCTTTTCGGCTTGTTAAACCTGGATTAATACTTTCTTAG
Seq C2 exon
TTCTTTCCTAGGTGAAGGAGGAGCCGCCGGACGAAGGACTCAAGGAAAACCATGAGGAAAATGAGCATGAACTGGAGGAAGAGCATGAAAAGCAGGCGGATGGGCAGCAGGTAGATCTGTCGAAGAAGCAGGAGGATCAGAAGAAGATTCTTGACGACCGGGAGGATGAGGAGTATCCAGATGAGTACGAGAACAGCCAGCAACAGCTTAGCCAAGGCACTGGTAGTAAACGACGCGCTGGCTTGGCCTGCGATCAGTGCGGCAAGCAGGTGTACAAGCTACCGTACTTGGAGGCCCACATCCGCAGCGTCCATCAGGGCTACTCGAAACCCTTCTTGTGCCGCAGCTGCGACAAGTCCTTCACTCGATATGAGCAGCTGCGCTCCCACATGCGCAACGCCCATCCACAGCTGGAGCAACTGCAGCAGGAGCTGCGCGACCTAATCTGCGAGCTGTGCAACCGGCAGTACAGCACAAAGAATGCCTTGGGCGAGCATTTAAAGCGTCATGCCCAGCGCAAGGAGCACGTGTGCGAGCACTGTGGAGTGGCCAAGGTGACCCGAACGGAGCTACTGACCCACCTGCGCACCCACAATCCCACCTGGGAGCGCTTCAAGTGCGAGCAGTGTCCGCAGCTCTTTCGCCACAAGAGCGCCATTAGCCGGCATGTTCGGGTGGTCCACGAGGGTCAGCGGCGGTTCCAGTGCGGTCATTGCGAGAAAAAGTTTGGCACGCATGCCTCGCAGGTGCGGCACGAGCGGCTGCACACGGAATCCACGGGCTCGGGAGAGGCAGCCGAGGAATGGCCCTTTGCCTGTATTCACTGCCAGAAGCCTTGCGTTTCGCGACAAACCCTTGAGTTGCACCTACGAAGGCACCGCGCGAGAAAGACGCACAGAAAACGAAGGGAGCACAGTCGGGAGAGTCAGGAGCAGGAGCAGGAGCACGACCGCGATCAGGAGCAGGGCGCTCGGGAAGCTCAACAGGATCAGCTCCGCAAGGGGGAAAAGCTACGGCAGAGAGATCTCTCCAGGGAAAGCCACCGAAATGAGGTGACCATGCAGACAAGCCAGCGGCCAAATGAGTGTCAACAAGGTCAAGAGTCCTACGATCCGGAACCGGATCCGCTGGAGGCAAGTCAGTGCAAGCTAGAGCAGGAAGATGCACTCGATCCGGAATGGCAGCACAAAATAGAGCAGGACGCAGAATCGCAAGACTCGGCGCGACTGGAAGGGCATTTCCATGACTACAAACCTATCCCTTCGAAAGCCTTATGATCAACTATAACCTATCCATATACGTCCGGTTACATACATCAGGTTAGCGCCCCTTGAGCAAAAATCTTTGATTTGAGATATTTAGAAAACTGTTAAAGCTAGAGTTTTGAAAATTGCTTTTCATTCAAACGTTGAACAATTCTATAAATGTAAAATTTATATAGGATGCAGTTTCTTGTTTATAGATTTTTATTTAAGTAAAAAAAAAATCCATAAATGGGTTAATTAAAATTGGGTTATCAGGATAACGCCCCCTAAGATAATTTAAGTTGGTTCGATTCATTTCGAAAGAAATTGGGATGATTAACACTTAAATATTTAAATTAGAATATTTTTAAAGGAAATTATGGACTTCACACATTCGTCTGGAAAGGGAATCATATATTTTTTTTGTAGGTAATCCAAAGTAATCGCAGACCAATCGAGTTTTATTCCGGTGAACGATTCGTTTTGAGTGGCATATTGTTTACCACCCTCGTATACCTTCCTAGCCAACCATACCCACACGTTATCTATTATATAGTAGTAGTATGGTGGTAGTAGTATGGAATCCATGTTTTTGCCAAACGTGCAGTGTGGATTGAGACACTGTCAATTTGAAAATGTCATTCTAAATTTCCAAAAACGTTTCTAAAGTAGGGAAATGCAGTTTTGAATTATAATCTTTTGCGTTCATTTTTGGTGTTTAAAACTGCAATTTACCTATAACCCGACTGTGACAGCGATCCAAAATGTACGCAAATCATAATAGTAATGAAAAAAGCCGTCTGGTTTCTCCAGATTAAATTTCTTCTTGTCCGAAAATACGACGCCACTCCTTAGACCAAGTCAAATGAGCTCGAGCAAAACTCAGACCCGCTTTTTTTCGCAACTTATTGAGAGGTGGTTTTATTTTCAGTTTTTCGTGTTTTATGTTTAGCTGTCTTAATCACCATTTGAATCAAAGATTTGATCTGGTTTTCAACACTTTTTCTCGAATTTTGGCGGAGAAGTCGTGGGAATTGGGAGGTATTCGAAGTATGGACCTGCGATCTGCCGCGGTAAAGACAAGGTTATTGCCACCATTATTTTTTTTTTCCATAAGTTTCGTTCTTTTGAATAAAGTTTATTATAGGGTTGCGACATCTGGCGGGTTTTCTGAAATTTTATGATTATGAGCATTAATAGAATGCTATGATATTGTATATTTCCTGCAGGGATAACAGGGTTCCTCTTAAAGCAAACTTTTCAATTCAACAGCATAACAAATTTTGTTGTCCTTACCTTAGGACCTTTTTTTTATCCTCAAGGAGAGAGGGAATGTCAGTGAACAAAAAACAACAACATTGATGAATTTTCGTGCAATGGCAAAACCAGAAAATAAAAATGAACGGAGCCATGCAGGGGGCGCTAATCTGATGACGCGTAGTGTATATCCAATGAACTATCATGCAAATGTGGCTAGGACGCATTAGCGAAAATTTTTAAATATCTTACTTTCACGACATTTTATCCTTGCTACTACAATGTATTAAATAGTTTTATATGTTCGCTTACTTCGTATTTTATACGTTTTATATGCTCGCTTACTCCATATTTTAAGTGCCTAATAAAACTGTTGACGAT
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0031144:FBtr0077267:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.022 A=NA C2=0.580
Domain overlap (PFAM):
C1:
PF0777610=zf-AD=WD(100=78.0)
A:
NA
C2:
PF121713=zf-C2H2_jaz=WD(100=7.4),PF134651=zf-H2C2_2=WD(100=9.1),PF134651=zf-H2C2_2=WD(100=9.1),PF121713=zf-C2H2_jaz=WD(100=7.4)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0309382
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0076959, FBpp0309383
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:
CTTATCGGATGGCAGCCAGTG
R:
CGCCTGCTTTTCATGCTCTTC
Band lengths:
137-190
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)