RetrogeneDB ID:

retro_mmul_1125

Retrocopy
location
Organism:Rhesus macaque (Macaca mulatta)
Coordinates:14:113963806..113964323(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:MMU.17965
Ensembl ID:ENSMMUG00000003909
Aliases:None
Description:ferritin light chain [Source:RefSeq peptide;Acc:NP_001248136]


Retrocopy-Parental alignment summary:






>retro_mmul_1125
AGCTCCAAGATTCATCAGAATTATTCCACTGACGTGGAGGCAGCCGCCAACCTCCTGGTCAATTTGCATTGGTGAGCCTC
CTCCACCCACTCTCGCTAGGCTTCTGTTTCCATCATGATGATGTGGCTCTGGAAGCTGTGGGACTCTTCTATGAATTGGC
CAAGGAGAAGTGCAGGGCTCTGAGCATCTCTTGAAGATACAAAACGAGTGTGGCAGCAGTGCTCTATTCCAGGACATCCA
TAAGTCACCTTACGATGAGTAGGGTAAAACCCTGGATGCCATGGGAGCCGCCATGGCCTTGGAGAAGAAGCTGAACCAGG
CTCTTTTAGATCTTCATGCCCTGGGTTCTGCCCACACAGACCTCCATATCTTGACTTCCTGGAGAGCGACTTCCTCAATG
AGGAAGTGAAACTCATCAAGAAGGTGGACAACCACCTGACCAACTTTGATAGGCTGGCTGGCCCCCCAGGCCAGGCTGGG
CAAATTCCTCTTCCAAAGGCTCACCCTCAAGCATGAC

ORF - retro_mmul_1125 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 68.54 %
Parental protein coverage: 99.43 %
Number of stop codons detected: 2
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalSSQIRQNYSTDVEAAVNSLVNMYLQASYTY-LSLGFYFDRDDVALEGVSHFFRELAEEKR-EGYERLLKM
SS.I.QNYSTDVEAA.N.LVN....AS.T..LSLGF.F..DDVALE.V..F..ELA.EK...G.E.LLK.
RetrocopySSKIHQNYSTDVEAAANLLVNLHW*ASSTH<LSLGFCFHHDDVALEAVGLFY-ELAKEKC<QGSEHLLKI
ParentalQNQRGGRALFQDVKKPAEDEWGKTPDAMKAAMALEKKLNQALLDLHALGSAHTDPHL-CDFLETHFLDEE
QN..G..ALFQD..K...DE.GKT.DAM.AAMALEKKLNQALLDLHALGSAHTD.H...DFLE..FL.EE
RetrocopyQNECGSSALFQDIHKSPYDE*GKTLDAMGAAMALEKKLNQALLDLHALGSAHTDLHI<LDFLESDFLNEE
ParentalVKLIKKMGDHLTNLNRLAG-PEAGLGEYLFERLTLKHD
VKLIKK...HLTN..RLAG.P.A.LG..LF.RLTLKHD
RetrocopyVKLIKKVDNHLTNFDRLAG>PQARLGKFLFQRLTLKHD

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






(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP007412_brain 0 .00 RPM 24 .09 RPM
SRP007412_brain_prefrontal_cortex 0 .00 RPM 161 .91 RPM
SRP007412_cerebellum 0 .00 RPM 14 .59 RPM
SRP007412_heart 0 .00 RPM 30 .09 RPM
SRP007412_kidney 0 .00 RPM 182 .98 RPM
SRP007412_liver 0 .00 RPM 379 .25 RPM
SRP007412_testis 0 .00 RPM 20 .92 RPM
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_1125 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_1125 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmul_1125 has 5 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_929
Pan troglodytes retro_ptro_645
Gorilla gorilla retro_ggor_750
Pongo abelii retro_pabe_800
Callithrix jacchus retro_cjac_889

Parental genes homology:
Parental genes homology involve 34 parental genes, and 530 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG0000001458227 retrocopies
Bos taurus ENSBTAG0000001334333 retrocopies
Canis familiaris ENSCAFG000000038611 retrocopy
Callithrix jacchus ENSCJAG0000000025013 retrocopies
Cavia porcellus ENSCPOG000000205581 retrocopy
Dasypus novemcinctus ENSDNOG000000024559 retrocopies
Dasypus novemcinctus ENSDNOG000000041265 retrocopies
Dasypus novemcinctus ENSDNOG0000000557736 retrocopies
Dasypus novemcinctus ENSDNOG000000078482 retrocopies
Dasypus novemcinctus ENSDNOG000000166838 retrocopies
Dipodomys ordii ENSDORG000000155505 retrocopies
Felis catus ENSFCAG0000000334837 retrocopies
Homo sapiens ENSG0000008708611 retrocopies
Gorilla gorilla ENSGGOG000000119999 retrocopies
Loxodonta africana ENSLAFG0000003124811 retrocopies
Microcebus murinus ENSMICG000000018617 retrocopies
Macaca mulatta ENSMMUG00000003909 9 retrocopies
Mustela putorius furoENSMPUG0000000330429 retrocopies
Mus musculus ENSMUSG000000507081 retrocopy
Nomascus leucogenys ENSNLEG0000000471610 retrocopies
Oryctolagus cuniculus ENSOCUG000000000146 retrocopies
Ochotona princeps ENSOPRG0000000249210 retrocopies
Procavia capensis ENSPCAG000000132276 retrocopies
Pongo abelii ENSPPYG0000001022311 retrocopies
Pan troglodytes ENSPTRG0000001126811 retrocopies
Pteropus vampyrus ENSPVAG0000000957025 retrocopies
Rattus norvegicus ENSRNOG000000208437 retrocopies
Sorex araneus ENSSARG0000001174112 retrocopies
Sus scrofa ENSSSCG0000000315333 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000206397 retrocopies
Tupaia belangeri ENSTBEG0000000531113 retrocopies
Tarsius syrichta ENSTSYG0000001398856 retrocopies
Tursiops truncatus ENSTTRG0000000125266 retrocopies
Vicugna pacos ENSVPAG000000055093 retrocopies



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