RetrogeneDB ID:

retro_mmur_780

Retrocopy
location
Organism:Mouse Lemur (Microcebus murinus)
Coordinates:GeneScaffold_817:568..1436(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:GAPDH
Ensembl ID:ENSMICG00000006546
Aliases:None
Description:glyceraldehyde-3-phosphate dehydrogenase [Source:HGNC Symbol;Acc:4141]


Retrocopy-Parental alignment summary:






>retro_mmur_780
ATGTTCCAATACGACTCCACCCACGGCAAGTTCAATGGCACTGTCAAGGTGGAGAACGGGAAGCTTGTCATCAATGGCCA
GCCCATAACCATCTTCCAGGAGCGAGATCCCACCAAAATCAAATGGGGTGAAGTGGGCACTGATTACATTGTGGAGTCCG
CTGGTGTCTTCACTATCCTGGAGAAGGCCAGGGCTCACCCAGATGGGGGTGCCAAAAGGGTCATCATCTCTTCCCCCTCT
GCTGACGCCCCCATGTTTGTGATGGGTGTGAACCACGACAAGTACCAAAACAACCTCACCATTGTCAGCAATGCCTCCTG
CACCACCAACTGCTTACCCCCCTGGCCAAGGTATTCCATGACAACTTTGGCATCGTGGAGGGACTCATGACCACAGTCCA
TGCAGTCACTGCCACCCAGAAGACCATGGATGGCCCCTCTGGGAAGATGTGGCGTGATGGCCGTGGGGCTCTCCAGAACA
TCATCCCTGTGTCGACTGGCGTGGCCAAGGCCATAGGCAAGGTCATCCCTGAGCTGAACGGGAAGCTCACTGTTATGGCC
TTCTGCGTCCCCACTGCCAACGTGTCCATGGTGGACCTGACCTGCCATTTGGAGAAGCCAGCCAAGTATGATGACATCAA
GAAGGTGGTGAAGCAGGCGGCGGATGGCCCCCTCAAGGGCATCCTGGGCTACACTGAGCACCAGGTTGTCTCCTCTGACT
TCAACAGCGACACCACTCTTCCACCTTTGATGCTGGGGCTGGCATCACCCTCAACGACCACTTTGTAAAGCTCGTTGCCT
GGTATGACAATTAATTTGGCTATAGCAACAGGGTGGTGGACCTCATGGCCCACATGGCCACCAAGGAG

ORF - retro_mmur_780 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 91.44 %
Parental protein coverage: 86.57 %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMFQYDSTHGKFHGTVKAENGKLVINGQPITIFQERDPTKIKWGEAGADYVVESTGVFTTLEKAGAHLDGG
MFQYDSTHGKF.GTVK.ENGKLVINGQPITIFQERDPTKIKWGE.G.DY.VES.GVFT.LEKA.AH.DGG
RetrocopyMFQYDSTHGKFNGTVKVENGKLVINGQPITIFQERDPTKIKWGEVGTDYIVESAGVFTILEKARAHPDGG
ParentalAKRVIISAPSADAPMFVMGVNHDKYQNNLTIISNASCTTNCL-APLAKVIHDNFGIVEGLMTTVHAVTAT
AKRVIIS.PSADAPMFVMGVNHDKYQNNLTI.SNASCTTNCL..PLAKV.HDNFGIVEGLMTTVHAVTAT
RetrocopyAKRVIISSPSADAPMFVMGVNHDKYQNNLTIVSNASCTTNCL<TPLAKVFHDNFGIVEGLMTTVHAVTAT
ParentalQKTVDGPSGKMWRDGRGALQNIIPASTGAAKAVGKVIPELNGKLTGMAFRVPTANVSVVDLTCRLEKPAK
QKT.DGPSGKMWRDGRGALQNIIP.STG.AKA.GKVIPELNGKLT.MAF.VPTANVS.VDLTC.LEKPAK
RetrocopyQKTMDGPSGKMWRDGRGALQNIIPVSTGVAKAIGKVIPELNGKLTVMAFCVPTANVSMVDLTCHLEKPAK
ParentalYDDIKKVVKQAADGPLKGILGYTEHQVVSSDFNSDT-HSSTFDAGAGIALNDHFVKLVAWYDNEFGYSNR
YDDIKKVVKQAADGPLKGILGYTEHQVVSSDFNSDT.HSSTFDAGAGI.LNDHFVKLVAWYDN.FGYSNR
RetrocopyYDDIKKVVKQAADGPLKGILGYTEHQVVSSDFNSDT<HSSTFDAGAGITLNDHFVKLVAWYDN*FGYSNR
ParentalVVDLMAHMATKE
VVDLMAHMATKE
RetrocopyVVDLMAHMATKE

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






Microcebus murinus was not studied using RNA-Seq expression data.
Microcebus murinus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmur_780 retrocopy.
Microcebus murinus was not studied using FANTOM5 data.
retro_mmur_780 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 22 parental genes, and 554 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000066755 retrocopies
Ailuropoda melanoleuca ENSAMEG0000001432935 retrocopies
Canis familiaris ENSCAFG000000150774 retrocopies
Callithrix jacchus ENSCJAG000000082341 retrocopy
Cavia porcellus ENSCPOG000000263501 retrocopy
Erinaceus europaeus ENSEEUG000000114443 retrocopies
Homo sapiens ENSG0000011164042 retrocopies
Gorilla gorilla ENSGGOG0000000955330 retrocopies
Loxodonta africana ENSLAFG000000027803 retrocopies
Macropus eugenii ENSMEUG0000001527367 retrocopies
Microcebus murinus ENSMICG00000006546 16 retrocopies
Macaca mulatta ENSMMUG0000001867933 retrocopies
Monodelphis domestica ENSMODG0000001806641 retrocopies
Mustela putorius furoENSMPUG0000001689128 retrocopies
Mus musculus ENSMUSG00000057666109 retrocopies
retro_mmus_1029, retro_mmus_1082, retro_mmus_1136, retro_mmus_1193, retro_mmus_1249, retro_mmus_1319, retro_mmus_1328, retro_mmus_136, retro_mmus_1365, retro_mmus_1371, retro_mmus_1467, retro_mmus_1474, retro_mmus_1480, retro_mmus_1615, retro_mmus_1692, retro_mmus_1721, retro_mmus_1728, retro_mmus_1886, retro_mmus_1922, retro_mmus_1957, retro_mmus_1983, retro_mmus_1985, retro_mmus_2009, retro_mmus_2020, retro_mmus_2030, retro_mmus_2100, retro_mmus_211, retro_mmus_2119, retro_mmus_2122, retro_mmus_2148, retro_mmus_2158, retro_mmus_2175, retro_mmus_2206, retro_mmus_2216, retro_mmus_2248, retro_mmus_2298, retro_mmus_2370, retro_mmus_2371, retro_mmus_2389, retro_mmus_2463, retro_mmus_2477, retro_mmus_2481, retro_mmus_2512, retro_mmus_2556, retro_mmus_2587, retro_mmus_2623, retro_mmus_2626, retro_mmus_2647, retro_mmus_2681, retro_mmus_2755, retro_mmus_2761, retro_mmus_2764, retro_mmus_2848, retro_mmus_2872, retro_mmus_2911, retro_mmus_2912, retro_mmus_2913, retro_mmus_2914, retro_mmus_2915, retro_mmus_2920, retro_mmus_2932, retro_mmus_2943, retro_mmus_300, retro_mmus_3036, retro_mmus_3064, retro_mmus_3120, retro_mmus_3137, retro_mmus_3140, retro_mmus_3148, retro_mmus_3151, retro_mmus_3188, retro_mmus_3193, retro_mmus_3197, retro_mmus_3216, retro_mmus_3228, retro_mmus_3306, retro_mmus_3335, retro_mmus_3336, retro_mmus_3357, retro_mmus_3377, retro_mmus_3445, retro_mmus_3514, retro_mmus_3575, retro_mmus_3650, retro_mmus_3658, retro_mmus_3693, retro_mmus_3716, retro_mmus_3814, retro_mmus_416, retro_mmus_437, retro_mmus_48, retro_mmus_553, retro_mmus_608, retro_mmus_619, retro_mmus_628, retro_mmus_635, retro_mmus_698, retro_mmus_745, retro_mmus_765, retro_mmus_766, retro_mmus_787, retro_mmus_811, retro_mmus_893, retro_mmus_914, retro_mmus_921, retro_mmus_946, retro_mmus_952, retro_mmus_976, retro_mmus_996,
Nomascus leucogenys ENSNLEG0000000382544 retrocopies
Pongo abelii ENSPPYG0000000418938 retrocopies
Pan troglodytes ENSPTRG0000000457743 retrocopies
Rattus norvegicus ENSRNOG000000186304 retrocopies
Rattus norvegicus ENSRNOG000000306382 retrocopies
Sarcophilus harrisii ENSSHAG000000149534 retrocopies
Xenopus tropicalis ENSXETG000000339751 retrocopy



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