DmeINT0007242 @ dm6
Intron Retention
Gene
FBgn0024975 | CG2712
Description
This gene is referred to in FlyBase by the symbol DmelCG2712 (FBgn0024975). It is a protein_coding_gene from Dmel. It has 2 annotated transcripts and 2 polypeptides (1 unique). Gene sequence location is X:2732469..2734402. Its molecular function is described by: DNA-binding transcription factor activity; zinc ion binding; transcription regulatory region sequence-specific DNA binding. It is involved in the biological process described with: regulation of transcription, DNA-templated. 11 alleles are reported. No phenotypic data is available. The phenotypic classes of alleles include: viable; fertile. 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:2732469-2733485:+
Coord C1 exon
chrX:2732469-2733170
Coord A exon
chrX:2733171-2733230
Coord C2 exon
chrX:2733231-2733485
Length
60 bp
Sequences
Splice sites
5' ss Seq
CCCGTGAGT
5' ss Score
8.4
3' ss Seq
TAGTTTCCCATCTTCGGCAGATT
3' ss Score
5.67
Exon sequences
Seq C1 exon
ACCACTAACGCATCAGCTGGACTTTGGCATCACTGTTCGGGACGCTAAATTAAGTTATTTATTTAAACGTGTATTATCTACTGTCGAGTTCAATCCATGACGACCATGTCGCCGCCGTCCCCCATGGACGCCTTGTGCCGCGTGTGCCACACAGCATCGCCGCGCTGCCTGCCGCTCTTCAAACCGCTCGACGATCCAATTTCCGGCAAACCAGCGACGCTGGCCAGCATTTTAAGCTACTGCAGCGGTCTGGAGATCCTAGAGGCGGAGCTCTTCCTGCCCCACCACATCTGCCCGGACTGCGTGGCCAAGTTGCGGCTCTCGCTGGAATTCAAGCGGAGTGTCCATCGCATGGACAGAATTCTGCGGCAGAGTCATGCGGACTTTTGCCGCAGCAAAAAGATCAGCGCGGTGAATACTAGGGCCAGGCTGTCAACCGAGATTCCGGAGGATTTTGTACTCGTGCTCGATGACCAGGAAGTGACTGAATATCCAGCAGAAACGATACGAGATGAGGAGCAACTCCTGGTCGTAGAATCAGATGAGGCGGAGAGCCGGCTGGAAGCGCCAATTGTACAGGAGGAGAGGCTGGATATTGCACTGGAACAGCACGAAGACGATCTCTGCGAGATTGTCGACGATCCGGATCCGGAGCAACGTAGGAGCAGGTTAGAAAGATCCGAGCCAGCGCTGCAATGTCCC
Seq A exon
GTGAGTTGCCTTTCCGAATTAGAAGTAAGTAATCACGAAATAGTTTCCCATCTTCGGCAG
Seq C2 exon
ATTTGCGGCAAACAACTGGCTAGGAAGCGGACCTTTCAGTACCACATGAGGCTACATGGCCAGCCAAAAATTCGCCAAGAAGACAACGACCACTGCATTGAAGAGTGCCTCCAAGTGGAGCCCGTTTTGCAGGCCAAAGCTGGCGAAGATGTCTACGAGATTGTGGAGAAATCAGCACAGACTTCGGCGACGCAGAAAACTTTGCCCAGTGGAAGCCGGCCTTGGAAACCCCTCAATCCCTCCCTACAGTGTAAA
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0024975:FBtr0070488:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.119 A=NA C2=0.271
Domain overlap (PFAM):
C1:
PF0777610=zf-AD=WD(100=40.1),PF122303=PRP21_like_P=PU(63.8=47.0),PF0009621=zf-C2H2=PU(13.0=1.5)
A:
NA
C2:
PF122303=PRP21_like_P=PD(34.9=61.2),PF0009621=zf-C2H2=PD(78.3=21.2)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0070466
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:
TGGAACAGCACGAAGACGATC
R:
CTGAAAGGTCCGCTTCCTAGC
Band lengths:
140-200
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)