RetrogeneDB ID:

retro_cjac_804

Retrocopy
location
Organism:Marmoset (Callithrix jacchus)
Coordinates:10:90980876..90981379(-)
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:ENSCJAG00000019089
Aliases:None
Description:Ferritin [Source:UniProtKB/TrEMBL;Acc:F7IMT8]


Retrocopy-Parental alignment summary:






>retro_cjac_804
CACCAGGACACAGAGGCTGCCATCAACTGCCAGATCAACCTGGAGCTCTATGCCGCCTGTCTCTTCCTATCTAAATCTTA
TTTATTACTTTGACTGCGATGATGTGGCTTTGAAGAACTTTGCCAAATACTTTCTTCACCAATCTCATGAGGAGAGGGAA
TATGCCGAGAAACTGAAGAAGCTGCAGAACCAGAGAGGTGGTTGAATCTTCCTTCAGGATATCAAGAAACCAAACTATGA
TGACTGGGAGAGTGGGCTGAATGCAATAGAGTATGCATTACACTTGACAACAAACGTGAATCAATCACTACTGGAACTGC
ACAAACTGGCCACTGACAAAAATGACCCCCGTTGTATTGACTTCATTGACACACATTACCTAAATGAGCAGGTGAAATCC
ATCAAATAATTGGGCAACCAACTCTCACAAGATGGGAGCCCCTGAATCTGACTTGGCAGGATATCTCTTTGACAAGATCA
CCCTGGGAGACAGTGATAATGAG

ORF - retro_cjac_804 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 77.33 %
Parental protein coverage: 92.35 %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalHQDSEAAINRQINLELYASYVYLSMSY-YF-DRDDVALKNFAKYFLHQSHEEREHAEKLMKLQNQRGGRI
HQD.EAAIN.QINLELYA....LS.SY.Y..D.DDVALKNFAKYFLHQSHEERE.AEKL.KLQNQRGG.I
RetrocopyHQDTEAAINCQINLELYAACLFLSKSY>YYFDCDDVALKNFAKYFLHQSHEEREYAEKLKKLQNQRGG*I
ParentalFLQDIKKPDHDDWESGLNAMECALHLEKNVNQSLLELHKLATDKNDPHLCDFIETHYLNEQVKSIKELGD
FLQDIKKP..DDWESGLNA.E.ALHL..NVNQSLLELHKLATDKNDP...DFI.THYLNEQVKSIK.LG.
RetrocopyFLQDIKKPNYDDWESGLNAIEYALHLTTNVNQSLLELHKLATDKNDPRCIDFIDTHYLNEQVKSIK*LGN
ParentalHVTNLRKMGAP-QSGLAEYLFDKHTLGDSDNE
....L...G.P..S.LA.YLFDK.TLGDSDNE
Retrocopy---QLSQDGSP>ESDLAGYLFDKITLGDSDNE

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 .27 RPM 64 .01 RPM
SRP051959_heart 0 .00 RPM 81 .32 RPM
SRP051959_kidney 0 .00 RPM 88 .46 RPM
SRP051959_liver 0 .00 RPM 107 .98 RPM
SRP051959_lung 0 .02 RPM 107 .40 RPM
SRP051959_lymph_node 0 .05 RPM 116 .62 RPM
SRP051959_skeletal_muscle 0 .04 RPM 30 .81 RPM
SRP051959_spleen 0 .00 RPM 160 .59 RPM
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_804 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_804 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_cjac_804 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 28 parental genes, and 308 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000168311 retrocopy
Bos taurus ENSBTAG0000001118410 retrocopies
Canis familiaris ENSCAFG000000159011 retrocopy
Callithrix jacchus ENSCJAG0000000025013 retrocopies
Callithrix jacchus ENSCJAG00000019089 16 retrocopies
Cavia porcellus ENSCPOG000000265863 retrocopies
Dasypus novemcinctus ENSDNOG0000001712883 retrocopies
Felis catus ENSFCAG000000073821 retrocopy
Homo sapiens ENSG0000016799620 retrocopies
Gorilla gorilla ENSGGOG000000277227 retrocopies
Latimeria chalumnae ENSLACG000000174261 retrocopy
Loxodonta africana ENSLAFG0000000482412 retrocopies
Microcebus murinus ENSMICG000000058516 retrocopies
Myotis lucifugus ENSMLUG0000002572616 retrocopies
Monodelphis domestica ENSMODG000000075829 retrocopies
Mustela putorius furoENSMPUG000000140303 retrocopies
Mus musculus ENSMUSG000000246614 retrocopies
Nomascus leucogenys ENSNLEG0000000332129 retrocopies
Oryctolagus cuniculus ENSOCUG000000141084 retrocopies
Otolemur garnettii ENSOGAG000000253549 retrocopies
Ochotona princeps ENSOPRG000000107347 retrocopies
Procavia capensis ENSPCAG0000001037713 retrocopies
Pongo abelii ENSPPYG0000000317312 retrocopies
Pteropus vampyrus ENSPVAG000000130383 retrocopies
Rattus norvegicus ENSRNOG000000226199 retrocopies
Sus scrofa ENSSSCG000000145409 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000145211 retrocopy
Vicugna pacos ENSVPAG000000039566 retrocopies



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