RetrogeneDB ID:

retro_mmur_1039

Retrocopy
location
Organism:Mouse Lemur (Microcebus murinus)
Coordinates:scaffold_17029:620..1932(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:PSMC1
Ensembl ID:ENSMICG00000016733
Aliases:None
Description:proteasome (prosome, macropain) 26S subunit, ATPase, 1 [Source:HGNC Symbol;Acc:9547]


Retrocopy-Parental alignment summary:






>retro_mmur_1039
GGTCAAAGTCAGAATGGTGGCCATGGGCCTAGAGATGGCAAGAGGGATGACAAGGACAAGAAAAAGAAATATGAACCTCC
TGTACCAACCAGAGTGGGGAAAAAGAAGAAGAAAACAAAAGGACCAGATGCTGCCAGTAAACCGCCACTGGTAACACCTT
ACACTCAGTGCCGGTTAAAATTATTGAAGTTAGAATTAAAGACTATCTTCTCATGGAGGAAGAATTCAGTAGAAATCAGG
AACAAATGAAACCATTAGAAGAAAAGCAAAAGGAGGAACAATCAAAAGTGGATGATCTGAGGGGGACCCCAATGTCAGTA
GGAACCTTGGAAGAGATCATTGATGACAATCATGACATTGTGTCTACATCTGTGGGCTCAGAACACTATGTCAGCATTCT
TTCATTTGTAGATAAGGGTCTGCTGGAATCAGGCTGCTCGGTCCTGCTCAACCACAAGGTGCATGCTATGATAGGAGTGC
TGATGGATGACACAGATCCCCTGGTCACAGTGATGAAGGTAGAAAAGGCCCCCCAGGAGACCTATGCTGATATTGGGGGA
TTAGACAACCAAATCCAGGAAATTAAGGAATCTGTGGAGCTTCCTTTCACCCATCCTGAATATTAAGAAGAGATAGGTAT
AAAGCCCCCTAAGGGAGTCATTCTCTATGGTCCACCTGGTACAAGTAAAATCTTATTAGCCAAAGCAGTAGCAAACCAGA
CCTTGGCCACTATCTTGAGAGTGGTTGGCTCTGAACTCATTCAAAAGTACCTAGGTGATGGGCCCAAACTCATATAGGAA
TTGTTTTGGGTTCCTGAAGAACATGCACCTTCCATCATGTTTATTGATGAAATTGATGCCATTGGGACAAAAGATACAAT
TCAAATTCTGGTGGTGAGAGAGAAGTTCAGTGAACAACGTTGGAACTGTTGAACCAGTTGGATGGATTTGATTCAAGAGG
AGATGTGAACGTTATTATGGCCACAAACCGAATAGAAACTTTGGATCCAGCACTCATCAGACCAGGCTGTACCAACAGAA
AGATCGAGTTCCCCCTGCCAGATGAAAAGACTAAGAAGCGTATCTTTCAAATTCACACAAGCAGGAAGATGCTGGCTGAT
GATTTAACTCTGGATGACTTGATCATGGCTATAGATGATCTTTCTGGTGCTGACATTAAGGCAATCTGTACAGAAGCTGA
TCTGATGACCTGAAGAGAATGTAGAATGAAAGTAACAAATGAAGACTTCAAAAAATCTAAGTAAAATGTTCTGTATAAAA
AACAAGAAGGCACCCCTGAGGGGCTCTATCTC

ORF - retro_mmur_1039 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 88.89 %
Parental protein coverage: 100.0 %
Number of stop codons detected: 5
Number of frameshifts detected: 2


Retrocopy - Parental Gene Alignment:

ParentalGQSQSGGHGPGGGKKDDKDKKKKYEPPVPTRVGKKKKKTKGPDAASKLPLVTPHTQCRL-KLLKLERIKD
GQSQ.GGHGP..GK.DDKDKKKKYEPPVPTRVGKKKKKTKGPDAASK.PLVTP.TQCRL.K.....RIKD
RetrocopyGQSQNGGHGPRDGKRDDKDKKKKYEPPVPTRVGKKKKKTKGPDAASKPPLVTPYTQCRL<KIIEV-RIKD
ParentalYLLMEEEFIRNQEQMKPLEEKQEEERSKVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVD
YLLMEEEF.RNQEQMKPLEEKQ.EE.SKVDDLRGTPMSVGTLEEIIDDNH.IVSTSVGSEHYVSILSFVD
RetrocopyYLLMEEEFSRNQEQMKPLEEKQKEEQSKVDDLRGTPMSVGTLEEIIDDNHDIVSTSVGSEHYVSILSFVD
ParentalKDLLEPGCSVLLNHKVHAVIGVLMDDTDPLVTVMKVEKAPQETYADIGGLDNQIQEIKESVELPLTHPEY
K.LLE.GCSVLLNHKVHA.IGVLMDDTDPLVTVMKVEKAPQETYADIGGLDNQIQEIKESVELP.THPEY
RetrocopyKGLLESGCSVLLNHKVHAMIGVLMDDTDPLVTVMKVEKAPQETYADIGGLDNQIQEIKESVELPFTHPEY
ParentalYEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLGDGPKLVRELFRVAEEHAPS
.EE.GIKPPKGVILYGPPGT.K.LLAKAVANQT.AT.LRVVGSELIQKYLGDGPKL..ELF.V.EEHAPS
Retrocopy*EEIGIKPPKGVILYGPPGTSKILLAKAVANQTLATILRVVGSELIQKYLGDGPKLI*ELFWVPEEHAPS
ParentalIVFIDEIDAIGT-KRYDSNSGGEREIQRTMLELLNQLDGFDSRGDVKVIMATNRIETLDPALIRPGRIDR
I.FIDEIDAIGT.KRY.SNSGGERE.Q.T.LELLNQLDGFDSRGDV.VIMATNRIETLDPALIRPG...R
RetrocopyIMFIDEIDAIGT<KRYNSNSGGEREVQ*TTLELLNQLDGFDSRGDVNVIMATNRIETLDPALIRPGCTNR
ParentalKIEFPLPDEKTKKRIFQIHTSRMTLADDVTLDDLIMAKDDLSGADIKAICTEAGLMALRERRMKVTNEDF
KIEFPLPDEKTKKRIFQIHTSR..LADD.TLDDLIMA.DDLSGADIKAICTEA.LM..RE.RMKVTNEDF
RetrocopyKIEFPLPDEKTKKRIFQIHTSRKMLADDLTLDDLIMAIDDLSGADIKAICTEADLMT*RECRMKVTNEDF
ParentalKKSKENVLYKKQEGTPEGLYL
KKSK.NVLYKKQEGTPEGLYL
RetrocopyKKSK*NVLYKKQEGTPEGLYL

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






RNA-Seq - click to see more details

Microcebus murinus was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Microcebus murinus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_mmur_1039 retrocopy.

TSS - click to see more details

Microcebus murinus was not studied using FANTOM5 data.

Lab - click to see more details

retro_mmur_1039 was not experimentally validated.

Retrocopy orthology:
Microcebus murinus 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 14 parental genes, and 72 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000175102 retrocopies
retro_cfam_1238, retro_cfam_1562,
Choloepus hoffmanni ENSCHOG000000135951 retrocopy
retro_chof_1954,
Callithrix jacchus ENSCJAG000000177017 retrocopies
retro_cjac_1152, retro_cjac_1537, retro_cjac_2417, retro_cjac_2433, retro_cjac_4219, retro_cjac_661, retro_cjac_678,
Dasypus novemcinctus ENSDNOG000000064581 retrocopy
retro_dnov_2162,
Homo sapiens ENSG0000010076410 retrocopies
retro_hsap_1090, retro_hsap_1278, retro_hsap_2080, retro_hsap_2658, retro_hsap_2810, retro_hsap_2873, retro_hsap_3323, retro_hsap_3416, retro_hsap_3793, retro_hsap_975,
Gorilla gorilla ENSGGOG000000106208 retrocopies
retro_ggor_1004, retro_ggor_1298, retro_ggor_1629, retro_ggor_1954, retro_ggor_1993, retro_ggor_2309, retro_ggor_780, retro_ggor_858,
Macropus eugenii ENSMEUG000000015261 retrocopy
retro_meug_623,
Microcebus murinus ENSMICG00000016733 7 retrocopies
retro_mmur_1039 , retro_mmur_1063, retro_mmur_1245, retro_mmur_1577, retro_mmur_216, retro_mmur_839, retro_mmur_983,
Macaca mulatta ENSMMUG000000229901 retrocopy
retro_mmul_255,
Nomascus leucogenys ENSNLEG0000001701310 retrocopies
retro_nleu_1123, retro_nleu_1163, retro_nleu_1589, retro_nleu_1625, retro_nleu_1669, retro_nleu_2318, retro_nleu_2625, retro_nleu_429, retro_nleu_616, retro_nleu_706,
Oryctolagus cuniculus ENSOCUG000000062314 retrocopies
retro_ocun_1135, retro_ocun_1212, retro_ocun_1654, retro_ocun_411,
Otolemur garnettii ENSOGAG000000323432 retrocopies
retro_ogar_3014, retro_ogar_367,
Pongo abelii ENSPPYG000000259489 retrocopies
retro_pabe_1059, retro_pabe_153, retro_pabe_2379, retro_pabe_2408, retro_pabe_2737, retro_pabe_2832, retro_pabe_3099, retro_pabe_825, retro_pabe_907,
Pan troglodytes ENSPTRG000000066239 retrocopies
retro_ptro_1530, retro_ptro_1904, retro_ptro_1944, retro_ptro_2153, retro_ptro_2321, retro_ptro_2573, retro_ptro_672, retro_ptro_742, retro_ptro_874,


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