RetrogeneDB ID:

retro_dmel_71

Retrocopy
location
Organism:Fruit fly (Drosophila melanogaster)
Coordinates:3R:2939993..2941481(-)
Located in intron of:FBgn0261238
Retrocopy
information
Ensembl ID:FBgn0014863
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:Mlp60A
Ensembl ID:FBgn0259209
Aliases:None
Description:Muscle LIM protein at 60A [Source:FlyBase gene name;Acc:FBgn0259209]


Retrocopy-Parental alignment summary:






>retro_dmel_71
ATGCCTTCCTTCCAACCGATCGAGGCCCCCAAGTGTCCGCGCTGCGGCAAGAGTGTCTACGCTGCCGAAGAGCGTCTGGC
TGGCGGCTATGTATTCCACAAGAACTGCTTCAAGTGCGGAATGTGCAACAAATCCCTGGACTCCACCAACTGCACAGAGC
ACGAGCGCGAGCTCTACTGCAAGACGTGCCACGGTCGCAAGTTCGGGCCGAAAGGTTACGGCTTCGGCACTGGAGCTGGC
ACCCTCTCCATGGACAACGGGTCACAGTTCCTGCGCGAGAACGGCGATGTGCCGTCCGTAAGGAATGGAGCCCGCCTGGA
ACCCAGGGCTATTGCTCGTGCCCCCGAAGGTGAGGGCTGTCCTCGTTGCGGTGGCTATGTGTACGCCGCCGAACAGATGT
TAGCCCGCGGTCGCAGCTGGCACAAGGAGTGCTTCAAGTGCGGTACCTGCAAGAAGGGTCTGGACTCGATCCTGTGCTGC
GAGGCTCCGGACAAGAACATCTACTGCAAGGGCTGCTATGCCAAGAAGTTTGGACCCAAGGGCTATGGTTATGGCCAGGG
CGGTGGTGCTCTCCAGTCCGACTGCTATGCTCACGACGACGGAGCACCGCAAATCCGTGCCGCCATTGATGTGGACAAGA
TCCAGGCCCGTCCGGGTGAGGGTTGCCCACGTTGCGGCGGTGTGGTCTACGCAGCGGAGCAGAAGCTTTCCAAGGGTCGG
GAGTGGCACAAGAAGTGCTTCAACTGCAAGGATTGCCACAAGACTCTGGACTCGATCAATGCCAGTGATGGTCCCGATCG
TGATGTGTACTGCCGCACCTGCTACGGCAAGAAGTGGGGACCACATGGCTATGGATTCGCATGCGGCTCTGGTTTCCTGC
AGACCGATGGCTTGACCGAGGATCAGATCAGCGCCAACAGGCCCTTCTATAACCCGGACACCACGTCAATTAAGGCCCGT
GACGGCGAAGGCTGTCCCCGGTGCGGAGGAGCCGTATTCGCCGCCGAGCAACAGCTGTCCAAGGGCAAGGTGTGGCACAA
GAAGTGCTACAACTGCGCCGACTGCCACCGGCCATTGGACTCGGTCCTGGCCTGCGATGGACCCGATGGCGACATCCACT
GCCGCGCCTGCTACGGCAAGCTCTTCGGCCCCAAGGGCTTTGGTTACGGCCACGCCCCCACTCTAGTGTCAACCAGTGGC
GAGAGCACCATCCAGTTCCCAGATGGCCGTCCTCTGGCCGGACCCAAGACTTCGGGCGGCTGCCCGCGTTGCGGTTTCGC
CGTGTTCGCCGCCGAGCAGATGATCAGCAAGACCAGGATCTGGCACAAGAGGTGCTTCTACTGCTCGGATTGCCGCAAAT
CGCTGGACTCGACCAACCTGAACGATGGACCCGACGGCGATATCTACTGCCGAGCCTGCTACGGCCGCAATTTTGGACCC
AAGGGAGTGGGCTACGGTCTGGGCGCGGGCGCTTTGACAACGTTCTAA

ORF - retro_dmel_71 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 70.75 %
Parental protein coverage: 60.29 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalDMAPKA-SIINVEQIQAPIGEGCPRCGGVVFAAEQVLSKGRSWHRKCFKCRDCTKTLDSIIACDGPDNEV
D.AP.....I.V..IQA..GEGCPRCGGVV.AAEQ.LSKGR.WH.KCF.C.DC.KTLDSI.A.DGPD..V
RetrocopyDGAPQIRAAIDVDKIQARPGEGCPRCGGVVYAAEQKLSKGREWHKKCFNCKDCHKTLDSINASDGPDRDV
ParentalYCKTCYGKKWGPHGYGFACGSSFLQTDGITEENLASERPFVAPDTTSIMAPDGEGCPRCGGAVFAAELQL
YC.TCYGKKWGPHGYGFACGS.FLQTDG.TE......RPF..PDTTSI.A.DGEGCPRCGGAVFAAE.QL
RetrocopyYCRTCYGKKWGPHGYGFACGSGFLQTDGLTEDQISANRPFYNPDTTSIKARDGEGCPRCGGAVFAAEQQL
ParentalSKGKMYHRKCFNCARCTRPLDSVLACDGPDDNIYCKLCYAKLFGPKGVGYGHTPTLVSTNYEYTPSCWGT
SKGK..H.KC.NCA.C.RPLDSVLACDGPD..I.C..CY.KLFGPKG.GYGH.PTLVST..E.T......
RetrocopySKGKVWHKKCYNCADCHRPLDSVLACDGPDGDIHCRACYGKLFGPKGFGYGHAPTLVSTSGESTIQFPDG
ParentalIDRNGQKSENGCPRCGFMVFAAEQVKSAKNVWHKLCFYCMECRKYLDSTNLNDGPDGGIYCRSCYAKFYG
....G.K...GCPRCGF.VFAAEQ..S....WHK.CFYC..CRK.LDSTNLNDGPDG.IYCR.CY....G
RetrocopyRPLAGPKTSGGCPRCGFAVFAAEQMISKTRIWHKRCFYCSDCRKSLDSTNLNDGPDGDIYCRACYGRNFG
ParentalPKGVGYGIGAGTLT
PKGVGYG.GAG.LT
RetrocopyPKGVGYGLGAGALT

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_71 retrocopy.

TSS - click to see more details

Drosophila melanogaster was not studied using FANTOM5 data.

Lab - click to see more details

retro_dmel_71 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 25 parental genes, and 45 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000121141 retrocopy
retro_amel_1294,
Callithrix jacchus ENSCJAG000000191536 retrocopies
retro_cjac_1266, retro_cjac_1285, retro_cjac_1384, retro_cjac_1555, retro_cjac_2919, retro_cjac_3150,
Equus caballus ENSECAG000000156061 retrocopy
retro_ecab_412,
Echinops telfairi ENSETEG000000170671 retrocopy
retro_etel_417,
Echinops telfairi ENSETEG000000196481 retrocopy
retro_etel_1589,
Homo sapiens ENSG000001751832 retrocopies
retro_hsap_2833, retro_hsap_2836,
Gorilla gorilla ENSGGOG000000266012 retrocopies
retro_ggor_1967, retro_ggor_1969,
Myotis lucifugus ENSMLUG000000023843 retrocopies
retro_mluc_1888, retro_mluc_486, retro_mluc_720,
Macaca mulatta ENSMMUG000000182571 retrocopy
retro_mmul_1474,
Macaca mulatta ENSMMUG000000207721 retrocopy
retro_mmul_1505,
Mustela putorius furoENSMPUG000000174691 retrocopy
retro_mputfur_262,
Mus musculus ENSMUSG000000264211 retrocopy
retro_mmus_2226,
Nomascus leucogenys ENSNLEG000000048852 retrocopies
retro_nleu_1208, retro_nleu_1592,
Oryctolagus cuniculus ENSOCUG000000083302 retrocopies
retro_ocun_1165, retro_ocun_649,
Otolemur garnettii ENSOGAG000000139996 retrocopies
retro_ogar_1220, retro_ogar_1411, retro_ogar_1688, retro_ogar_2589, retro_ogar_2909, retro_ogar_3399,
Ochotona princeps ENSOPRG000000119871 retrocopy
retro_opri_1125,
Pongo abelii ENSPPYG000000047902 retrocopies
retro_pabe_2199, retro_pabe_2347,
Pan troglodytes ENSPTRG000000018362 retrocopies
retro_ptro_1920, retro_ptro_1922,
Rattus norvegicus ENSRNOG000000037721 retrocopy
retro_rnor_1763,
Sorex araneus ENSSARG000000022901 retrocopy
retro_sara_526,
Ictidomys tridecemlineatus ENSSTOG000000108761 retrocopy
retro_itri_551,
Tupaia belangeri ENSTBEG000000089911 retrocopy
retro_tbel_2176,
Tupaia belangeri ENSTBEG000000097673 retrocopies
retro_tbel_1866, retro_tbel_4404, retro_tbel_4407,
Tursiops truncatus ENSTTRG000000145961 retrocopy
retro_ttru_1332,
Drosophila melanogaster FBgn0259209 1 retrocopy
retro_dmel_71 ,


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