Special

DmeINT0011919 @ 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:10618733-10620190:-
Coord C1 exon
chrX:10619966-10620190
Coord A exon
chrX:10618997-10619965
Coord C2 exon
chrX:10618733-10618996
Length
969 bp
Sequences
Splice sites
5' ss Seq
TGTGTAAGA
5' ss Score
3.68
3' ss Seq
AATAAAATAACAAAATACAGAAA
3' ss Score
-1.5
Exon sequences
Seq C1 exon
GAGTAACGGCATATGAGCGCTCGCAGAGAAATCGCTAATCACGAACGGCGGACGACAAAAGCCCAAGAAGAACAGGCAGAGGGAAAAAAGAAAGCAAAAAATGAAAAAGGATTGCCAACAGGAGCAGCAGTTAAATAATTAAACAAGTGCCAGATCGCAAAACAACAGTGTGCAATTTTTTTTTTAACAAGTTATTTTCGAGTGAAAAGCCGTGGAAAACTGTGT
Seq A exon
GTAAGAAAGGCTACCAGCAAGAAGGCTCAAGGAGCAGAAGAAGGCGAGGCGTCTAGCACAGCCGACCCCCCACCACCCAAACCACCCACAACCTCCCCCCGTCCCCCTCGTCACTCAACGTGTATTGGCACAAGGCGAAAACCGCCACCGCCTCGCGTGCTCTCTCTCTCTCTCTATCGCCCTCTTTTCTCCCACTCTCTTTTTAGTCCTTTCGTTGGGTGTCAAACCAATACACTTGCACGCACACCCTCGTCCTCCAAAAAAAAGAAATAGTAACGAAATTATTGAAACAGCGAACACAACAATAACAACAAAATATCCAGGCAGCTTGCAAGTCACTTGTCAAAATCTAAAAAAACTGTTCTGTTTTTGTTTTTTTTTTTTCGTGACTATTGTGGAAATACAATTCTCAAAAATTCGCAAACTAACGTTGTGTGTGCGTGTCTGTGTGTGTGCGTTTGGAGTCTGAGTTTTCATAACAAGCAGCTCTCTTGGCCACAAAAACCCAACCGCAAGCCAAGAATATGCCACGAAAATAAGCAGATTGATTCTAAACGACACGTTCGAGTGATAGATCCCATGTTGTTTGACTTATTGAATATTCAATAACTACCAATAAAGAAATTCCACCGGGCTAGCGAAAAAATGCCGATAAAGTAAACATTCCCAATATACATAATAAAAAAAAGTGCTGGTGGCATTATTAAAAAAATACAAATATTAAAAACAAGAAAAATCAAAGTGGCAGAGTTGCCACCCGGCGAAAGGACAGAAACTTCAGCGAGTGGCTTTCGGTGAACGGTTTTTTTACTGCTACATATCTCGCGTAGCGCCTCCATCGCTGTCGCTGTCGCAGTCGCAGTCGGCGTCTGCGTCGACGTTGGCAGTGACAGCTCTGTCAGTTTTCAGTTTTTCCTTTTTGCTTCACACGTATGCTTTTTATTTCTCGAATAAAATAACAAAATACAG
Seq C2 exon
AAACCTGCAGTGTACAACTGAAAAGCGAGAATCTTTGTAAAAGCGATGCAACAGCAACGACAACAACGACAGCATCACCAACAACAACAAAAAGTGTAGTGGGTCGCACGCGCGACTTGTGTGTGTGAATAATGAAGAAGAAGCAGAAGCAGAAGCAACAACAACAGCAGCAGCAGAGGCAGAGCAAGGCGCCATCTGAAGCGGAATCGGAGGCAGACCGCCCCGGCAGCAACAGCAGCAGCACCAGCAACAACAAGCATTCGC
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0263072:FBtr0307021:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact

5' UTR

No structure available
Features
Disorder rate (Iupred):
  C1=NA A=NA C2=1.000
Domain overlap (PFAM):

C1:
NA
A:
NA
C2:
NO


Main Inclusion Isoform:
NA


Main Skipping Isoform:
NA


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
FBpp0297864, FBpp0297865, FBpp0304664
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:
AAGCCCAAGAAGAACAGGCAG
R:
CTGCTGCTGCTGTTGTTGTTG
Band lengths:
343-1312
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)