DmeINT0008301 @ dm6
Intron Retention
Gene
FBgn0051612 | CG31612
Description
This gene is referred to in FlyBase by the symbol DmelCG31612 (FBgn0051612). It is a protein_coding_gene from Dmel. It has 3 annotated transcripts and 3 polypeptides (1 unique). Gene sequence location is 2L:21762314..21795447. Its molecular function is described by: sequence-specific DNA binding; RNA polymerase II regulatory region sequence-specific DNA binding; DNA-binding transcription factor activity, RNA polymerase II-specific. It is involved in the biological process described with: positive regulation of nuclear cell cycle DNA replication; regulation of transcription by RNA polymerase II. 15 alleles are reported. The phenotype of these alleles manifest in: chaeta. The phenotypic classes of alleles include: visible; viable. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of low expression to a trough of very low expression. Peak expression observed within 00-18 hour embryonic stages, in adult female stages.
Coordinates
chr2L:21762314-21766160:-
Coord C1 exon
chr2L:21765963-21766160
Coord A exon
chr2L:21762900-21765962
Coord C2 exon
chr2L:21762314-21762899
Length
3063 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TATCCTCTGTTTTCCCGCAGGCA
3' ss Score
13.47
Exon sequences
Seq C1 exon
GTATTCCCTTAAACTTCATGAGATTAGCCACTCGAAGGCAGTTGAGCGCAATTATCTCTGCCATTTTGCGGACTGCTCATATGCAGGGCGAACCCCGGAAAGCCTGAAAACCCACTTGGTCTCCCACTCCCAGGAAAATCACAAATGTGCGCGGATTAACTGCAGCTATGTGGGAAAGAGCGAGCTGCACCTAAAAAG
Seq A exon
GTAAGTGATTAACAATTAAATTAAGGTTAAAAATATCAATCTATTCTGCATAAATACTAGTATTACATAAGCAAAACATGGCACAGCTTTCCAGATTTTATGTTTTGTTAACAAGGTAACAGAGTGATGCTGAAGTTTTTTGCCAAATGTGAAACTAGGAATTTAATTCCGTTTTGCCCAGCAAACATGATGTTCCACCTGCATATCTATTATTCCCACTAAATGCTCCACAAACGCACTTTACGAAAGCGAGGTCTCCAAGGTCCTGGAAAACGAAGTCGATCTATTGCGAGTATTAATCTTCCGATACGAAACAGTCGGGTTAAGACAATTGCAGGTATCAAATTAAACGAGCGACATTATCCGCACGAATTTGCGTTTATTAAACCAAAAAAGCAACAAGAGCAAGAATGTCATCTATAATTGCGGACTTTGAACAGCAAATGCATAAATTGATGGAAACTGGAAGGGCGCATTTCCAGTTGGAAGAGAAACGTTGAAGGAGGACAGTCGCCAAAGTCGCAGCTCCTTCGTTCCCTACATAATCGTGACTTATCGATCGCCTTTGATATGCACATTGAATTCTTTTATATTTCTACTGCTCCCCGTTTGCCTGCGGTCCCGACGATCAGCTCAAGATCGAATTGCCGGCAATATGGTAGTGCCACTGTTGGCAAGCCACTGTTCAGTTGGCCGTCCCAGAGATGACCGTGAAAGGAGGAAAGGGACGAATCGAAAAGGTCTGCAGATTGCAGGTTGTAAGGCGTTTTGGACAAAGGCAAAAATGAAGCGGATGGTTGGTAGTCGTCGGCTTTCCGATCGTTTTGATGGGGACAATGACTTTTTTTGTATGCAACCGCTGCACAGTGGTCGAAAAGACTTATTTACCCATTTAAAATTCATATGTATATTGAATTTGGTTCAGTAGAGTGCATACACATGTATATATGCAGCTATAATTTTACAAACTATATTTAAAATGGTATCAACATTTTTCGCAATAGCAAAAGGGTATACCAAATTCGTTAAAAAGCAGGTAACAGTTGTAAAGTATCATTTATTGAAAAAGACCGCATTGAATATATGTATATATATATATACATATGCGTGGATTGTGATTTATATTTGTATTGTATCCTTCTATCGTGTGTGGTGCTTCTAATGCGTCTTCCGACATTAGCTCAATTGGTGTGCTAGAAATATTTTGGAAATTCGAATTATTGCACCCGCTGCCTCAACTTGCAAGAATGCTTTGTGTAGTTGCTAACTAAATATTGTGCGGAAGCTTCACTTAGGGTACATGGAATAAGGGAAACTTGTATTAACTTCACGCAAGATTTCAATTTTTCGCAAAATCTTCATCTAAACACAAGCCAACAAGCGCTGATGTACAATATTTTGGTTTCCTGCTTTGTATAAGTTACTTGTAGTTGATGAGCTCTTCGCACGACCTTTGGTCTACAATGACCCGCACTTTTCCTTAATTAAATTTGCTTATTGTCGATATATTATATATTACTTTTCGAGCTTCCGGGAGTTAATCATCGTGCCTTATAATAAGTATCTTCAAATATCTTCCTTATATTTATTATGGATGTTTTTTGGTCAAATTGCTCAACGCTCTAATCGTTATATCATATGTAATCATAATTATATACACTAGCTTCCAAGGCACTAAATCTATATAGGAAAACTCTCACCTTTGTACCGACATGACTTTTAAAGAATGTTAATTTAAGATTACCAAAGTTATTATTAGGTATAAAAAACTGTAGATTTTACATACTGTATTAATTGTATTAAAAGTATTAAAAGTCCGCCGAAAATCGGGTCTTGCGTAAATCTTGCCCAGGAATCCAGTCACTGAGACAGAAAACTGTTGTGATGTGCTTAACTCACATCCGAGATCTTCAATTAGCTATCGAAAGGCAGCGGTGGTAATCCTGGAATTTCAAAGCGCAACCAAGAAAGCGATCGGTCGGCAGTCCCGCCTTGGATTTGCAAGCCGCGTTTCGCGGCTTGGTCGACATTCGACAGAGGTATATAGGGGAGGATGAGGGCGGATCGTGGTGGAAAGCCTCCTACAACTGGCGGTTCGATCTTCAAGCTCCATTACTCGCCGCTAATTAAGCCTACCGAGTCGCGCATGAGTCGCGTTCATCTGTTTCCCTTGGTCTTCGGACTTCAGTTTATTCAGTCGAAGCTTGAGATTTCACACAGATTCCGATTCCAGCAGCCCGGGCCCACAAAAAACATTGGCAATTAATTGTGAGTCCTTGGTTTGGACAGTAGCTGATAAGTGGAGTGGACATCCAACACACACATATGCAAGGATGCTCCCTTAGTGGGCTTCTGGGGAAACAGCTACAGAAGTATTGGGCATAATTGAAGGTGCGTAACTAAAGTCGTGTGAGTGCGGGAATATCTTTTTTTCTTGTAGAGCCTATTGGTACATTAGCATTCGGACAATCTTTAAGGGAAAATAATTTTAATATTTTAGTTATTGCAAGCAAAACGATTAATGCTTTAGGACAATTAGTCCTTTAGATATGTTTCATTTTCATTTTCGAATCACTGTATTTTGCATGATTGAACAAATCTTTGCCTCATTTTAAGATATTGTAAAATGTTTGACAATCATTTTAAATAACGCTTTTCAGAGCGAATGTTATTAGCTATTTTCCTCCTTTCTTAAAACACAGCGATAGAACAAGAAAATGAAAATAAGAATTAAGAATGCCCTCTCAGATGTAGCTCTTTGGCTAGTCGACCTGGCCAGACCGCTCGATTGGCCAACATAGGCTTCCTCTTCTAACCGAAAAACTGATCACCATCTAAGACAACCGGATTGGCTGAGCCTCTTTTTTTTCTTCTTGAGTCGAAAGGCAATTGCCAATTGCCAACTTACTCGTATTTTGATTTCGAGCGTGTGATTCGAATGCGAAATTAGCAATTAGTTCTGACTGCGGTGGCGGGACAAGCCGCCACTGGAATTTACTGCCTAATCAAGCGTTAAGATTTTAAATATGGCTTCGCTCAAGTTTATCCTCTGTTTTCCCGCAG
Seq C2 exon
GCACCTCAAGTCGGCTCATTCCACGGAGAAGAATGGTGAGGAGTGGTTTTCGTGCGATCAATGCGATTTCAGAGCCCGCATCAAGGGTCACCTCCGTCGGCACTCGTTGCGCCACTCGGGCCAGAAGCCCCACCAATGCCCCCACTGCGACTTCCAGTGCAGCACCATAGATAACCTACGTAAGCACATCATCAAGACGGGAAAGCATCCCGGCATGTTCATTTACCACTGCGCTAAGTGCTCCGATGAAGAAGCCGGTGAAATATTTAAGAGCAACAGCTACAAAGAATACCAGCACCACTTGAAGACTCACAAGGCTGGCTGAGAAAATATTTTAGGGAACGCTGTTTAAATTTAAATAATAATAGATTTTATCAACATCCTAATATCCTTTCATTAAACTAAAACATGAATTGATATTAATTCTAAAATATTCGTTTGAATACAGAACTGTTAAAGAAACATACAGAAAGAGATTAATTTATGCATGTTGGAAAAAATCCCAGAAATCTTAGAATTATACAACCCTTAAAATTATAAAAATATTAATAAAAAGTTGGCGATTAAAAGGCATGGCTTTATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0051612:FBtr0085908:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.050 A=NA C2=0.157
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=23.9)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0085262
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0290221
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)