DmeINT0011923 @ dm6
Intron Retention
Gene
FBgn0263072 | CG43347
Description
This gene is referred to in FlyBase by the symbol DmelCG43347 (FBgn0263072). It is a protein_coding_gene from Dmel. It has 4 annotated transcripts and 4 polypeptides (3 unique). Gene sequence location is X:10602641..10620190. Its molecular function is described by: DNA-binding transcription factor activity, RNA polymerase II-specific; sequence-specific DNA binding; DNA-binding transcription repressor 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. 5 alleles are reported. No phenotypic data is available. No phenotypic class data is available.
Coordinates
chrX:10608638-10610683:-
Coord C1 exon
chrX:10610327-10610683
Coord A exon
chrX:10608786-10610326
Coord C2 exon
chrX:10608638-10608785
Length
1541 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGT
5' ss Score
11.37
3' ss Seq
ATTATGTTCAAAACTTCTAGGAT
3' ss Score
6.75
Exon sequences
Seq C1 exon
ATTGCGGCGGCTGCAATCTGAAGTTCGAGCACCCACTGTATTATCGCACCCACTGCTCCGTCTTCCACGATCCCTCGATGAGCCTGACCATCCGCAAGTACCATTGCAAGGTGTGCGGCGAACCGGTGCTGGGCAAGGATAACATCATGAAGCATGCGGCGGAGAAGCACGACGGCAAGGGGGCATACCAGTGCCAATTCTGCAGCAAGTTCTTCCTGCGCCTCAACTACCTGGAGATGCATCGCACCTACGGATGCGCCTCAAATCCAAATCGATCGCGACCGGTGTGCGATTTTTGCGGTCGCAAATTCTGCCAGCCGCAGAAACTGAAGGCGCACATTAAGCGCATGCACAGCG
Seq A exon
GTAAGTTGCCAGCGGAACGATTGCAGGATCCCAAATTATCTAGACCGTAACTGTGATCGTACACCCATGCGTATGCGTAACGTAACCCAATATAACGTAGCCGCATCGTAGGCCAACTGACTGCCATATCGTATGTCGTAAGCTCGTGTCTAGTATATAGTATGTCGTATCGATTGTATAGCATATATAGCATAAATAGCGTATGTCGTATGTATACCGGCGAATGCCGTACAACTGCTTTGCATAAATCAACCCACTTGTATTTGATGGTACCAACAACAGCGAATCGAGTTCACAGTTTCCACAATGATTTCTACATTTTGTTTACATTATCCAACCGGAGTATATAATTATTAAAAAGTAAAGCACCATTTCTTTTGTTTTAAAATATGTAATTCTGAAGTAAACCTTTAAAAGTCGTATTTTGTTTAATAGTACTTTTAGTTCTTTTATAATTAGAATTAGAATTTTATTTATTTTAGTAAAAATTTATATAAATTTTAAGTGGTAACCGTGACCTTGATTTGCCCATATGAACACACCCACAAAAACTATAGAACCACACAATAATGTTAAATGAACTAATATCGTATAAAGTCGCTTAGCTATAAAACTAGATGTACTAACAAAGATACAACACCTCAAAGTCACCACCACAGCAACACTGCGATATGTGTAACACTAAAAGCATCTGCGATCGCTCATTTCTTTGGTTGCTAACTTTTTTGGTTGTACATCTGCTAAATTGGTTTATTATATCTATTTACTTAACCTTTATCGGTTGGTTCTTTTATGTTATGTAAATGCTATAAATCATAATTGAAATATCGTATATTGCATTCACATCCTAGATTCGCACTGAAGTGACTGAACTTGTTTGATTAGATATTCAAAAATTATACAAAATTATAATGGATAGTTAATGATAAAGGAAAACAAGTCGGAATTGCAAAAAAATAGTTGCCAATACTAATACTAAAGTTTATAAGAATTCAATACATAAAATCAAAGAAGCTTCTTGCTGTTTAATCCAACTCTCTCTAAAATTTGCATTCATCAGTTCGAGATAAAGGTTTTTAGCATAAAAAAAATATATATATTTACAATTATTCCAATATATCAGTCCTTCAGTCATAGTGCATATTGAGTACCAATCCAGATCGTAGCCTGCATTGTGTTAACGCTTTTAGTGAATGATTTGCCTTGGTTGGAATTTCGTTTTTATTTGCCATTTGTTTTTTTTTTTATTAGAGTATGGCCCAAATCCGATTTTATGATTGCTATAGCCCAACCCAACCAGATCCTACAAAAGTACCGATAGTCTTGTGATTCGTGCCTTATGTGATTCGGCTTTTGTTTTATGTTCGTTGTACGTTCGTTGGTTCGTTCGTTGTTGGGTTGGTTTCTGGTTATGGATTATCACTAAGTTGTTCTTTCAAAATCACCACAATCCGAAATTTCATTTTCTTCATACAATTTCATTTTAGATATGGCTGAAGTTTTACGAGATTTTCAGTGTAAATTATGTTCAAAACTTCTAG
Seq C2 exon
GATCGCGAGCGGCACTGCAGCGCCACTCGAAGGAGGTGCACAGCCGCAACTCGACGGTGGTGAGCTGTCCGCGGTGCCAGAAACTCTTCCAGAATCGCAGCAATCTCAAGATCCATATGCTGACCCACTCGGGCGTCAGGCCGTTCAA
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0263072:FBtr0307021:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.014 A=NA C2=0.129
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=WD(100=22.5),PF0009621=zf-C2H2=WD(100=19.2)
A:
NA
C2:
PF134651=zf-H2C2_2=PU(53.6=30.0)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0297864
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
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:
CCGCAAGTACCATTGCAAGGT
R:
CTGGAAGAGTTTCTGGCACCG
Band lengths:
358-1899
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)