DmeINT0003018 @ dm6
Intron Retention
Gene
FBgn0032295 | CG12299
Description
This gene is referred to in FlyBase by the symbol DmelCG12299 (FBgn0032295). It is a protein_coding_gene from Dmel. It has 2 annotated transcripts and 2 polypeptides (1 unique). Gene sequence location is 2L:10737345..10740762. Its molecular function is described by: DNA-binding transcription factor activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding; RNA polymerase II regulatory region sequence-specific DNA binding; 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. 8 alleles are reported. No phenotypic data is available. No phenotypic class data is available. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of low expression. Peak expression observed within 00-06 hour embryonic stages.
Coordinates
chr2L:10737345-10740762:+
Coord C1 exon
chr2L:10737345-10737767
Coord A exon
chr2L:10737768-10737875
Coord C2 exon
chr2L:10737876-10740762
Length
108 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGG
5' ss Score
10.26
3' ss Seq
TTGTTGTTTGATTTGCACAGCCT
3' ss Score
5.28
Exon sequences
Seq C1 exon
CCAATCGTGCAAGGGCCGCCCAACATAAAACATTTTTCTTTTATTTGTTGTACGCACGGCGAAGACGCTTGCAATTGCGATTTTGGCTCTGCAGAATTGCGATTGGGCGATGCGCTGCATTCGCTCGAGTCGCAGCTCCTGGCAGTCGCAGCTAACCAGACAACGGGTCGGAGGACGGTACGCGATTCCGGCGACCCACGGAACCGAGCAGCCAAATTCAAAAACAAGCGAGCACCGAAAACAGGAAGCAAGTTATTCGCATTTCGCTGGCGGCGCATAAAATGGAACGCAGTGGACGAATGTGGACGAGAGCCCTGAGAGAAACACAAAAGCACGGAACCTGAGCAACAGCACACACCAGTGATATAATAGTAGTCTACGGAACCCCTGATCCACGGCACTTCGCATCTAATCTCACCCAAG
Seq A exon
GTACGGCATTGATTTTTCTCCCCGCAAACGCGCATTTTTATTATAGAGAAAATGTTCACACGCTCGTCGCTTGTGTTCCTTGTGATTTTTGTTGTTTGATTTGCACAG
Seq C2 exon
CCTTTTGGCAAGATGGCCGTGCAGCTGAAACAGAGCTACCACCACCTGCCCCTGACGATCACGCCAATCCTGCAGCAGACGCACCTCCTGCCGCAACAGGCACCCAATCCACCCCAGCAGCAACCGCAGCAGCCACAGCCGCCGGATCTCACCTTCCACTGCATGTGCTGTGCGGAGTTCTTCGTCCATCCGCTGGCGCTGTACCAGCACATGAACACCCTGCACCCCCATGAGCCGGGCAATGGACAGCAAGAGCAGGAGAGCCCGGGCGACGAGAGCGAGGACTACAGCTGGATATTCGAGCCGGTGTGCGAGCTGGCGGAGGATGGCAGCGACTCGTCGGATGGGAGCGCCTCCTCGGGCTCCGACAGCTCCTCGTCGTCGGACGACGACGATGACGATGACGACGACGACAGCAGCAGCTCCAGTTCGAGTTCCAGCAACTCGAGCTCATCAAGCAGCTCGGTGCCGACCACCAGCAACTCCAATACCCAGCAGAGCCAGGAGTCAGTGCAGCCACTTCACGGCCTGGTTGCCGGTCCGGGCTACAATGAGTTCCAGCTGCAGATGACAGATCCGCGGGAGTCCACCTCCATATTCATGGTGCAGCCGACCGTAAGCGTCACGCCCTTGCAGCAGCTACTACCACCGGCACCCACTGTTAGCCCGGGATTGGGCCTGCAATCGACGCCCATCAAGCGGCGGCGCGGAAGGCGGAGCAACATCGGTGCACCCGTGATGGATCCAGCGTTGAATGGCAACCAGAAATGCTTCCAGTGCACGCACTGCGAGGCGAGCTTTCCCAACGCCGGCGATCTGTCCAAGCACGTGCGCTCGCACATCACCAACAAGCCGTTCCAGTGCTCCATCTGCCAGAAGACATTCACGCACATCGGCAGCCTGAACACGCACATCCGCATCCACAGCGGCGAGAAGCCGTACAAGTGCGAGCTCTGCCCGAAGGCCTTCACGCAGTCCAGCAGCCTGATGGTGCACATGCGCTCGCATTCGGTGCGCAAGCCGCATCAGTGTGTGCAGTGCGACAAGGGATTCATCAACTACAGCTCGCTGCTGCTGCACCAGAAGACGCACATCGCGCCCACGGAGACGTTCATCTGTCCGGAGTGCGAGCGCGAATTCAAGGCGGAGGCGCTGCTCGACGAGCACATGCGCATGCATACGCAGGAGCTGGTGTACCAGTGCGCCATCTGCCGCGAGGCCTTCCGCGCCAGCTCGGAGCTGGTACAGCACATGAAGAACCACATGGGCGAGAAGCCATTCACCTGCTCGCTGTGCGACCGCTCGTTCACGCAGTCGGGTAGCCTGAACATCCACATGCGCATCCATACCGGCGAAAAGCCGTTCCAGTGCAAGCTATGCGACAAGTGCTTCACACAGGCCTCCAGTCTGAGTGTTCACATGAAGATCCATGCGGGCGAGAAGCCCTACCCGTGTCCCATATGCGGCAAGTCGTACAGCCAGCAGGCGTACCTCAACAAGCACATCCAGGCGCACCAGATGGCTTCGGCCGCCTCCGCATCCACGTCGCCTGGCCTGCTGGTCGCCAAGCAGCCGCACGAAACACTCGTTTGCATTGTCTGCGGATCGTTGCATGCGGATGCCACTGCACTGGCCAGCCATGTGCACAGCCAGCACGCAGCGCTGCTGGACACGATGAAGCAGTCCGGAATGAACACGGCGCCGGGCGGAGCGATTCCAGACGTCAAGTGCAGTGCAGAGGAGCAGCAAGCCTATGTGGAGCGGGTTCAGTGCGTCCTGCAGCAGATGAACCATCAGCAGCAGCATCAACAGCACCAGCAACAACCTCCGCAACAACAACAGCAACATCCGCAACAACAACAGCAGCAGCATCTGCAACAACAGCCGCATCAGATGCAGCTACCGCAGCAGCCCAAGTTGCCAGCCATGGACTCCACCGGCGAGGACGAAGAAGAGCCCGACGAAGCGGAGGAACCGCCGGATGAGGAGGAGGAACAAGATGAACCAGAGGAGCCGGCGGAGGTGAAAACGGAAGTGCTGGCAGCAGAGGACGCTCTCACCAATCCGGGCTATCCCATTCTCGGGCTGCAGGAGGAACAGATCCTGCTAGACTCTGACATGTACTACGAGGACTTCGGCGACATGGACGTGGGCTGTCAGGAGGAGGTGTTCGGCGACTTTGTCGTCAACGAGGAGGAGGTTTACACCGATGCGCTCATCTAGATCTAGGTACTAAGATTTGGCCATAGTTTACGAAAGTAATTCATATTTACATTGAAAGGCACGACAGTTCTTAACTACGTTTGGATCACAAAATGTGCTGACCGCACTTTTTTTATACACTTAATTTTGTTTAATGATGTCGTGTGGTATTACAGAGAAGACATTTGTCGGAAGTGTTCCAAAAGTACTTAACTCACAGTTTATCGTTGTTAGGTTACCATGTAGGATTCCCAGAGCACACAACAAACCTTCAAAGTTTCAACTCGGTACGCGAAAGATCAGTTACTTATCTATTAACCATGGAACCACCAAGAACCTTTTTTTTTTTTACTAATCATAAGATCAAAAGCGATTTTGTGAGCATTCCCAGTACAACTTGTGGCACATTTTGGGCAACCGAAAGCGAAATTCCAGTTTTGTATCTCATATCACACGAAGCCCACACGACTAAAGAAGATTGTCCAGGAAATGGACGTATTGTATTTGCATAGTATCTTACAAAGATATTACATTTTGTTAGTATTAAGCCCTACTTTATGCTGCTCATTTTACATCCCAAGGGATATACCCTTACCCAAGTTGGAGCCACAACGACTCCAACTATTCCACGTCGCGTATTTCCCAGAATCGCCTGAAGAGATTACATTAATCGTTATATTTAAGC
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0032295:FBtr0080113:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=3.5),PF134651=zf-H2C2_2=WD(100=3.5),PF134651=zf-H2C2_2=WD(100=3.5),PF134651=zf-H2C2_2=WD(100=3.4),PF086195=Nha1_C=WD(100=36.9),PF134651=zf-H2C2_2=WD(100=3.5),PF134651=zf-H2C2_2=WD(100=3.5),PF134651=zf-H2C2_2=WD(100=3.5)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0079702
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:
TCTACGGAACCCCTGATCCAC
R:
CAGCGGATGGACGAAGAACTC
Band lengths:
243-351
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)