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FB2024_02
,
released April 23, 2024
noncoding_13567
Please see the JBrowse view of Dmel\CG42638 for information on other features
To submit a correction to a gene model please use the Contact FlyBase form
AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Some regions with low pLDDT may be unstructured in isolation.
Low-frequency RNA-Seq exon junction(s) not annotated.
Gene model reviewed during 5.46
Present in a large (34.1 kb) polymorphic duplication flanked by DOC elements; 100% identity to trpml. (see FBrf0211329)
Gene model reviewed during 5.48
There is only one protein coding transcript and one polypeptide associated with this gene
Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\CG42638 using the Feature Mapper tool.
The testis specificity index was calculated from modENCODE tissue expression data by Vedelek et al., 2018 to indicate the degree of testis enrichment compared to other tissues. Scores range from -2.52 (underrepresented) to 5.2 (very high testis bias).
JBrowse - Visual display of RNA-Seq signals
View Dmel\CG42638 in JBrowse3-46
3-43.1
Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
Please Note This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see JBrowse for alignment of the cDNAs and ESTs to the gene model.
For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.
New annotation (CG42638) in release 5.22 of the genome annotation.
The 76BD region of the iso-1 strain used to sequence the D. melanogaster genome contains a duplication that is flanked by Doc elements. This duplication has not been found in any of the other strains tested (Oregon R, Canton-S and a red1 e4 strain). The presence of the middle Doc element that forms the junction between the two duplicated segments in the annotated genome could not be confirmed in the lab copy of the iso-1 strain. The duplication may thus have arisen after the iso-1 strain was constructed in the lab in 1986 (see FBrf0072686) but before the BAC and WGS genomic libraries used to sequence the genome were made in 1998 and 1999 respectively. The duplication in the annotated iso-1 strain is 31.4kb and involves three transcription units. Two of the transcription units are completely duplicated (Trpml/CG42638 and CG42529/ms(3)76Ca pairs), while only the coding exons of the third gene are duplicated, with several non-coding exons proximal to and outside of the tandem duplication (this pair corresponds to Gyc76C (CG42636) and CG42637).
The release 5 genome sequence has been assembled with a duplication of 26.68kb on chromosome arm 3L (the two copies of the duplication are at coordinates 19,706,343..19,733,031 and 19,737,759..19,764,445). The duplication is a polymorphic variant that is present in the sequenced strain, but does not exist in other D.melanogaster strains. The duplicated region contains coding sequences, such that duplicated copies of these coding regions exist in the release 5 genome annotation. The order of the duplicated segments is Doc{}1052--duplicated copy 1 (CG8743 CG42637 CG42529)--duplicated copy 2 (CG42638 CG42636 CG14101)--Doc{}1053--(5'UTR sequences of CG42636). The annotations CG8743 (trpml) and CG42638 are sequence-identical, and the annotations CG42529 and CG14101 are sequence-identical. In addition, the coding sequence (but not untranslated sequences) of the CG42636 annotation (Gyc76C) are duplicated, with the second copy of the coding sequences annotated as CG42637.
