RetrogeneDB ID:

retro_cjac_889

Retrocopy
location
Organism:Marmoset (Callithrix jacchus)
Coordinates:11:13108815..13109250(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSCJAG00000000250
Aliases:None
Description:Ferritin [Source:UniProtKB/TrEMBL;Acc:F7G1I6]


Retrocopy-Parental alignment summary:






>retro_cjac_889
ATGAGCTCCCAGGTTCATCAGAATTATTCCACCAACGTGGAGGCAGCCTCCAACCTCCTGGTCAATTTGCATCTGTGGGC
TTCCTCCACCCCCTCTCACTGGGCTTCTGTTTCCATCATGATGATGTGGCTCTGGAAGTTGTGGGGCACTTCTATGAATT
AGCCAAGGAGAAGTAAGGGGCTCCAAGCATCTCCTGAAGATACAACACCAGTGTGGCAGCAGTGCTCTATTCCAGGACAT
CCAGAGGTCACCTCAAGATGAGTGGGGTAAAACCTTGGATGCCAGGGAAGCTGCCATGGCCATGGAGAAGAAGCTGAACC
AGGCTCTTTTGCATCTTCATGCCCTGGGATCTGCCCACACAGACCTCCACCTCTTGACTTCTTGGAAAGCCATTTCTTCA
GTAAGGAAGTGAAATTCATCAAGAAGGTGAACAAT

ORF - retro_cjac_889 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 66.67 %
Parental protein coverage: 84. %
Number of stop codons detected: 0
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalMSSQIRQNYSTDVEAAVNHLVNVYLQASYTY-LSLGYYFDRDDVALEGVSHFFRELAEEK-REGYERLLK
MSSQ..QNYST.VEAA.N.LVN..L.AS.T..LSLG..F..DDVALE.V.HF..ELA.EK...G...LLK
RetrocopyMSSQVHQNYSTNVEAASNLLVNLHLWASSTP<LSLGFCFHHDDVALEVVGHFY-ELAKEK<VRGSKHLLK
ParentalMQNQRGGRALFQDIKKPAQDEWGKTLDAMEAAMALEKNLNQALLDLHALGSARTDPHL-CDFLESHFLDE
.Q.Q.G..ALFQDI....QDEWGKTLDA.EAAMA.EK.LNQALL.LHALGSA.TD.HL..DFLESHF...
RetrocopyIQHQCGSSALFQDIQRSPQDEWGKTLDAREAAMAMEKKLNQALLHLHALGSAHTDLHL<LDFLESHFFSK
ParentalEVKIIKKMGD
EVK.IKK...
RetrocopyEVKFIKKVNN

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
SRP051959_colon 0 .00 RPM 155 .67 RPM
SRP051959_heart 0 .00 RPM 229 .58 RPM
SRP051959_kidney 0 .00 RPM 988 .33 RPM
SRP051959_liver 0 .00 RPM 921 .72 RPM
SRP051959_lung 0 .00 RPM 497 .96 RPM
SRP051959_lymph_node 0 .00 RPM 322 .20 RPM
SRP051959_skeletal_muscle 0 .00 RPM 210 .45 RPM
SRP051959_spleen 0 .00 RPM 1320 .57 RPM
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_889 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_889 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_cjac_889 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
Macaca mulatta retro_mmul_1125

Parental genes homology:
Parental genes homology involve 35 parental genes, and 546 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG0000001458227 retrocopies
Bos taurus ENSBTAG0000001334333 retrocopies
Canis familiaris ENSCAFG000000038611 retrocopy
Callithrix jacchus ENSCJAG00000000250 13 retrocopies
Callithrix jacchus ENSCJAG0000001908916 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 ENSMMUG000000039099 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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