RetrogeneDB - Retrocopy retro_dmel

                        
>retro_dmel_17
ATGGTTTTCGTTCACGTTTCGGAGAAGGAGGGCGACGAGCCCATCGAGCTGCCGGCTGAGGAGGATGGCACTTTGCTGCT

GTCCACACTGCAGGCGCAGTTTCCGGAATCTAGCGGTCTGCAGTACCGCAACGTGGACACGAAGGCGGTGCGTGGAGTTC

GCTCCAACGAGGGCCGACTGTATTCGCCCAGCGAAGAAACCGGCTGGGGCGAGTACCATTACTTTTGCGTCTTTCCCAAG

AAGAACAAGCGCCAGAGCGAAGATAACTTGGAAAACTCAACTGCCAAAACCAAGCGCACTGAGGCCCATCTGCGCTGCTT

TGATCTCATCGTGCTCGGCTTGTCCTATAACACCACCGAGCAGGATTTGCGTGAGTACTTCGAGACCTACGGCGATGTGG

TGAAGGCTGAGATCAAGAAGGACACCAGGTCGGGCCACTCCAAGGGTTTCGGGTTCGTGCGCTTCGGCTCTTACGATGTC

CAGATGCACGTACTCTCTAAGCGCCATTCAATTGATGGTCGCTGGTGCGAGGTTAAGGTGCCCGCCTCGAGGGGCATGGG

CAATCAGGAGCCTGGCAAGGTATTCGTCGGCCGCTGCACCGAGGACATAGAGGCGGATGACTTGCGCGAGTACTTCTCAA

AGTTTGGCGAAGTGATCGACGTGTTCATTCCCAAGCCCTTCAGGGCTTTTAGCTTTGTAACCTTTCTCGATCCGTATGTA

CCACGCGTCGTGTGCGGAGAGAAACACATAATCAAGGGAGTTTCGGTCCATGTGTCGACTGCTGACAAAAAGAACGTGCA

GAACAAAAACCAACTGTTCCAGACCAACAACTACAACAATTTGGACAACAACTTTAAGATGCAACCGGCCAACAACTTTA

GAATGCACCCAGCCAACAACTTTAGCATGCATTCATTTAATCCACATGGTTACCAAATGAATCGCGTCATGAACTAG

ORF - retro_dmel_17 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

Percent Identity:	73.4 %
Parental protein coverage:	58.38 %
Number of stop codons detected:	0
Number of frameshifts detected:	0

Retrocopy - Parental Gene Alignment:

                                ParentalMDFVQVSEEEGDEPIELPAEEDGTLLLSTLQAQFPGSCGLKYRNLDTKAVRGVRSNEGRLFPPSVESGWG
M.FV.VSE.EGDEPIELPAEEDGTLLLSTLQAQFP.S.GL.YRN.DTKAVRGVRSNEGRL..PS.E.GWG
RetrocopyMVFVHVSEKEGDEPIELPAEEDGTLLLSTLQAQFPESSGLQYRNVDTKAVRGVRSNEGRLYSPSEETGWG
ParentalEYAYFCVFPKENKRKSDDNLENSTAKTKRIETRLRCTDLIVLGLPWKTTEESLREYFETYGEVLMAQIKK
EY.YFCVFPK.NKR.S.DNLENSTAKTKR.E..LRC.DLIVLGL...TTE..LREYFETYG.V..A.IKK
RetrocopyEYHYFCVFPKKNKRQSEDNLENSTAKTKRTEAHLRCFDLIVLGLSYNTTEQDLREYFETYGDVVKAEIKK
ParentalDTKSGQSKGFGFVRFGSYDAQMRVLTNRHLIDGRWCEVKVPNSKGMGHQVPCKVFVGRCTEDINSDDLRE
DT.SG.SKGFGFVRFGSYD.QM.VL..RH.IDGRWCEVKVP.S.GMG.Q.P.KVFVGRCTEDI..DDLRE
RetrocopyDTRSGHSKGFGFVRFGSYDVQMHVLSKRHSIDGRWCEVKVPASRGMGNQEPGKVFVGRCTEDIEADDLRE
ParentalYFSKFGEVTDVFIPRPFRAFSFVTFLDPDVAQSLCGEDHIIKGVSVHVSNAAPKAEQNRNQQVQSYNYNS
YFSKFGEV.DVFIP.PFRAFSFVTFLDP.V....CGE.HIIKGVSVHVS.A..K..QN.NQ..Q..NYN.
RetrocopyYFSKFGEVIDVFIPKPFRAFSFVTFLDPYVPRVVCGEKHIIKGVSVHVSTADKKNVQNKNQLFQTNNYNN
ParentalA-NSFGMHSYHPQGN-HMNPGRNGHHRGNNQH
..N.F.M....P..N..M.P..N......N.H
RetrocopyLDNNFKM---QPANNFRMHPANNFSMHSFNPH

                            

                            Legend:
                            
                                *Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide

                        

RNA-Seq - click to see more details

Drosophila melanogaster was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Drosophila melanogaster was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_dmel_17 retrocopy.

TSS - click to see more details

Drosophila melanogaster was not studied using FANTOM5 data.

Lab - click to see more details

retro_dmel_17 was not experimentally validated.

Retrocopy orthology:

Drosophila melanogaster does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

Parental genes homology:

Parental genes homology involve 11 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000002381	2 retrocopies	retro_cjac_2457, retro_cjac_525,
Dasypus novemcinctus	ENSDNOG00000008531	1 retrocopy	retro_dnov_2262,
Homo sapiens	ENSG00000120948	2 retrocopies	retro_hsap_1209, retro_hsap_3637,
Macaca mulatta	ENSMMUG00000007456	1 retrocopy	retro_mmul_1847,
Mus musculus	ENSMUSG00000041459	1 retrocopy	retro_mmus_1958,
Nomascus leucogenys	ENSNLEG00000009512	2 retrocopies	retro_nleu_201, retro_nleu_819,
Pongo abelii	ENSPPYG00000001894	1 retrocopy	retro_pabe_1008,
Pan troglodytes	ENSPTRG00000000136	2 retrocopies	retro_ptro_2460, retro_ptro_828,
Sus scrofa	ENSSSCG00000023126	1 retrocopy	retro_sscr_652,
Tarsius syrichta	ENSTSYG00000004077	1 retrocopy	retro_tsyr_2004,
Drosophila melanogaster	FBgn0025790	1 retrocopy	retro_dmel_17 ,

	RetrogeneDB ID:	retro_dmel_17
Retrocopy location	Organism:	*Fruit fly (Drosophila melanogaster)*
	Coordinates:	3L:15465721..15466678(-)
	Located in intron of:	None
Retrocopy information	Ensembl ID:	FBgn0036496
	Aliases:	None
	Status:	KNOWN_PROTEIN_CODING
Parental gene information	Parental gene summary:
	Parental gene symbol:	TBPH
	Ensembl ID:	FBgn0025790
	Aliases:	None
	Description:	TAR DNA-binding protein-43 homolog [Source:FlyBase gene name;Acc:FBgn0025790]

Parental	MDFVQVSEEEGDEPIELPAEEDGTLLLSTLQAQFPGSCGLKYRNLDTKAVRGVRSNEGRLFPPSVESGWG
	M.FV.VSE.EGDEPIELPAEEDGTLLLSTLQAQFP.S.GL.YRN.DTKAVRGVRSNEGRL..PS.E.GWG
Retrocopy	MVFVHVSEKEGDEPIELPAEEDGTLLLSTLQAQFPESSGLQYRNVDTKAVRGVRSNEGRLYSPSEETGWG

Parental	EYAYFCVFPKENKRKSDDNLENSTAKTKRIETRLRCTDLIVLGLPWKTTEESLREYFETYGEVLMAQIKK
	EY.YFCVFPK.NKR.S.DNLENSTAKTKR.E..LRC.DLIVLGL...TTE..LREYFETYG.V..A.IKK
Retrocopy	EYHYFCVFPKKNKRQSEDNLENSTAKTKRTEAHLRCFDLIVLGLSYNTTEQDLREYFETYGDVVKAEIKK

Parental	DTKSGQSKGFGFVRFGSYDAQMRVLTNRHLIDGRWCEVKVPNSKGMGHQVPCKVFVGRCTEDINSDDLRE
	DT.SG.SKGFGFVRFGSYD.QM.VL..RH.IDGRWCEVKVP.S.GMG.Q.P.KVFVGRCTEDI..DDLRE
Retrocopy	DTRSGHSKGFGFVRFGSYDVQMHVLSKRHSIDGRWCEVKVPASRGMGNQEPGKVFVGRCTEDIEADDLRE

Parental	YFSKFGEVTDVFIPRPFRAFSFVTFLDPDVAQSLCGEDHIIKGVSVHVSNAAPKAEQNRNQQVQSYNYNS
	YFSKFGEV.DVFIP.PFRAFSFVTFLDP.V....CGE.HIIKGVSVHVS.A..K..QN.NQ..Q..NYN.
Retrocopy	YFSKFGEVIDVFIPKPFRAFSFVTFLDPYVPRVVCGEKHIIKGVSVHVSTADKKNVQNKNQLFQTNNYNN

Parental	A-NSFGMHSYHPQGN-HMNPGRNGHHRGNNQH
	..N.F.M....P..N..M.P..N......N.H
Retrocopy	LDNNFKM---QPANNFRMHPANNFSMHSFNPH

*	Stop codon
>	Forward frameshift by one nucleotide
<	Reverse frameshift by one nucleotide

RetrogeneDB ID:

retro_dmel_17