RetrogeneDB ID:

retro_mmur_921

Retrocopy
location
Organism:Mouse Lemur (Microcebus murinus)
Coordinates:scaffold_131:364979..365770(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL6
Ensembl ID:ENSMICG00000002961
Aliases:None
Description:ribosomal protein L6 [Source:HGNC Symbol;Acc:10362]


Retrocopy-Parental alignment summary:






>retro_mmur_921
GGTGGAAAAGTTGAGAAGCCGGATACTAAAGAGAAGGAACCTGAAGCCAAGAAGCCCCACTGCAGCCAACATCCTGTTCT
CCTTAGAGGAATCGGCAGATATTCCCTATCTGCTATGTATTCTAGAAAGGCCATGTACAAGAGGAAATATTCAGTGGTGA
AATCCAAGGTTGAAAAGAAGAAGGAGAAGGTCCTCACCACTTGTTACAAAACCAATTGGTGGTGACAAGAATGGTGGTAC
TCATGCGGTTAAACTTTGCAAAATGCCTAGATATCATCCAGCTGAACGTGTGCCTCAGAAGCTGTTGAGCCACAGCAAAA
AACCCCGTTAGCCATCATGTAAGAAGACTGCAAGCTAGCATCACTCCAGGGACCATTCTAACCATCCTCACCAGGGGCCA
CAGAGGCAAGAGGGTGGTTTTCCTGAAGCAGCTGGGCAGTGGCTTGTTACTTGTGACTGGACCTCTGTCCCTCAATTGAG
TTCCTCTGCGAAAGACACACCAGAAATTTGTCGCCACCTCCACAAAAATAGACACCAGCAAATGTGAAAATCCCAGAACA
TCTTACTGATGGTTACTTCAAGAAGCAGCAGCTGCGAAAGCTCAGAGACCGAAAGGGTGAGATCTCCCACACAGAAAAAG
AGAAATATGAGATTACAGAACAGCACAAAGTGGATCAGAAAGCTGTGGACTCCCAAATTTGACCAAAAATCGAGGCTATT
CCTAGCTCCGGGGCTACCTTCAATCTGTGTTTGCCCTGACGAATGGAGTTTATCCTCACAGACTGATATTC

ORF - retro_mmur_921 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 76.95 %
Parental protein coverage: 91.7 %
Number of stop codons detected: 2
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalGGKVKKANLKAKKVKKGKPHCSRNPVLVRGIGRYSRSAMYSRKAMYKRKYSVAKSKVEKKKKEKVLAT-V
GGKV.K...K.K.....KPHCS..PVL.RGIGRYS.SAMYSRKAMYKRKYSV.KSKVEKKK.EKVL.T.V
RetrocopyGGKVEKPDTKEKEPEAKKPHCSQHPVLLRGIGRYSLSAMYSRKAMYKRKYSVVKSKVEKKK-EKVLTT>V
ParentalTKPVGGDKNGGTRVVKLRKMPRYYPTEDVPRKLLSHGKKP-FSQHVRRLRASITPGTVLIILTGRHRGKR
TKP.GGDKNGGT..VKL.KMPRY.P.E.VP.KLLSH.KKP..S.HVRRL.ASITPGT.L.ILT..HRGKR
RetrocopyTKPIGGDKNGGTHAVKLCKMPRYHPAERVPQKLLSHSKKP>VSHHVRRLQASITPGTILTILTRGHRGKR
ParentalVVFLKQLGSGLLLVTGPLTLNRVPLRRTHQKFVIATTTKIDIS-NVKIPKHLTDAYFKKKKLRKPRHQEG
VVFLKQLGSGLLLVTGPL.LN.VPLR.THQKFV.AT.TKID.S.NVKIP.HLTD.YFKK..LRK.R...G
RetrocopyVVFLKQLGSGLLLVTGPLSLN*VPLRKTHQKFV-ATSTKIDTS>NVKIPEHLTDGYFKKQQLRKLRDRKG
ParentalEIFDTEKEKYEITEHRKVDQKAVDSQILPKIKAIPQ-LQGYLRSLFALTNGIYPHRLIF
EI..TEKEKYEITE..KVDQKAVDSQI.PKI.AIP..L.GYL.S.FALTNG.YPHRLIF
RetrocopyEISHTEKEKYEITEQHKVDQKAVDSQI*PKIEAIPS<LRGYLQSVFALTNGVYPHRLIF

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_921 retrocopy.

TSS - click to see more details

Microcebus murinus was not studied using FANTOM5 data.

Lab - click to see more details

retro_mmur_921 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 21 parental genes, and 134 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000030601 retrocopy
retro_acar_171,
Bos taurus ENSBTAG000000317236 retrocopies
retro_btau_1038, retro_btau_1117, retro_btau_1305, retro_btau_16, retro_btau_424, retro_btau_809,
Canis familiaris ENSCAFG000000088731 retrocopy
retro_cfam_36,
Callithrix jacchus ENSCJAG000000124507 retrocopies
retro_cjac_1362, retro_cjac_1620, retro_cjac_1949, retro_cjac_2723, retro_cjac_328, retro_cjac_349, retro_cjac_497,
Cavia porcellus ENSCPOG000000135268 retrocopies
retro_cpor_1105, retro_cpor_1149, retro_cpor_1486, retro_cpor_382, retro_cpor_412, retro_cpor_651, retro_cpor_731, retro_cpor_982,
Dipodomys ordii ENSDORG000000057931 retrocopy
retro_dord_166,
Equus caballus ENSECAG000000175141 retrocopy
retro_ecab_811,
Erinaceus europaeus ENSEEUG000000002813 retrocopies
retro_eeur_503, retro_eeur_553, retro_eeur_595,
Felis catus ENSFCAG0000000685812 retrocopies
retro_fcat_1264, retro_fcat_1370, retro_fcat_1844, retro_fcat_232, retro_fcat_398, retro_fcat_500, retro_fcat_625, retro_fcat_637, retro_fcat_643, retro_fcat_690, retro_fcat_926, retro_fcat_935,
Gorilla gorilla ENSGGOG0000000337216 retrocopies
retro_ggor_1602, retro_ggor_1893, retro_ggor_1898, retro_ggor_2047, retro_ggor_2138, retro_ggor_236, retro_ggor_2569, retro_ggor_2597, retro_ggor_2709, retro_ggor_2745, retro_ggor_290, retro_ggor_2938, retro_ggor_356, retro_ggor_426, retro_ggor_566, retro_ggor_816,
Microcebus murinus ENSMICG00000002961 25 retrocopies
retro_mmur_1053, retro_mmur_1068, retro_mmur_1105, retro_mmur_1133, retro_mmur_1134, retro_mmur_1174, retro_mmur_1212, retro_mmur_1248, retro_mmur_1311, retro_mmur_1512, retro_mmur_1564, retro_mmur_190, retro_mmur_200, retro_mmur_201, retro_mmur_208, retro_mmur_324, retro_mmur_356, retro_mmur_361, retro_mmur_497, retro_mmur_613, retro_mmur_616, retro_mmur_716, retro_mmur_814, retro_mmur_848, retro_mmur_921 ,
Macaca mulatta ENSMMUG000000074331 retrocopy
retro_mmul_171,
Monodelphis domestica ENSMODG000000030964 retrocopies
retro_mdom_1556, retro_mdom_1624, retro_mdom_1784, retro_mdom_615,
Mustela putorius furoENSMPUG000000025269 retrocopies
retro_mputfur_1116, retro_mputfur_1279, retro_mputfur_1320, retro_mputfur_1367, retro_mputfur_1407, retro_mputfur_1445, retro_mputfur_1489, retro_mputfur_401, retro_mputfur_571,
Mus musculus ENSMUSG0000002961413 retrocopies
retro_mmus_1264, retro_mmus_1336, retro_mmus_1898, retro_mmus_2684, retro_mmus_276, retro_mmus_3065, retro_mmus_3579, retro_mmus_3611, retro_mmus_3622, retro_mmus_3719, retro_mmus_445, retro_mmus_465, retro_mmus_730,
Nomascus leucogenys ENSNLEG000000270932 retrocopies
retro_nleu_1813, retro_nleu_43,
Oryctolagus cuniculus ENSOCUG000000038025 retrocopies
retro_ocun_129, retro_ocun_17, retro_ocun_189, retro_ocun_229, retro_ocun_245,
Pongo abelii ENSPPYG0000002585513 retrocopies
retro_pabe_1764, retro_pabe_1891, retro_pabe_2451, retro_pabe_2493, retro_pabe_2573, retro_pabe_2897, retro_pabe_3314, retro_pabe_358, retro_pabe_3677, retro_pabe_3725, retro_pabe_43, retro_pabe_472, retro_pabe_868,
Rattus norvegicus ENSRNOG000000259361 retrocopy
retro_rnor_129,
Sarcophilus harrisii ENSSHAG000000070962 retrocopies
retro_shar_506, retro_shar_536,
Ictidomys tridecemlineatus ENSSTOG000000094093 retrocopies
retro_itri_1024, retro_itri_1125, retro_itri_684,




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