RetrogeneDB ID:

retro_cjac_114

Retrocopy
location
Organism:Marmoset (Callithrix jacchus)
Coordinates:10:103029673..103030000(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSCJAG00000016933
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSCJAG00000019848
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_cjac_114
ATGGCCGATCCTCACGTGAGACAGATCAAGATCAAGACTGGCGTGGTGAAGCGGTTAGTCAAAGAAAAAGTGATGTATGA
AAAAGAAGCAAAACAACATGAGGAAAGGATTGAAAAAATGAGAGCTGAAGATGGTGAAAATTATGACATTAAAAAGCAGG
TAGAGATCCTACAAGAATGCCGGATGATGATCCCAGATTGCCAGCACAGGTGGGAAGCTGCGTATTTGGATCTTCAACAG
ATACTAGAAAATGAAAAAGACTTGGAAGAAGCTGAGGAATATAAAGAAGCACGTTTAGTACTGGATTCAATGAAGTTAGA
AGCCTGA

ORF - retro_cjac_114 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 93.52 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMADTRVRQIKIKTGVVKRLVKEKVMYEKEAKQQEEKIEKMRAEDGENYDIKKQVEILQESRMMIPDCQRR
MAD..VRQIKIKTGVVKRLVKEKVMYEKEAKQ.EE.IEKMRAEDGENYDIKKQVEILQE.RMMIPDCQ.R
RetrocopyMADPHVRQIKIKTGVVKRLVKEKVMYEKEAKQHEERIEKMRAEDGENYDIKKQVEILQECRMMIPDCQHR
ParentalLEAAYLDLQQILENEKDLEEAEEYKEARLVLDSMKLEA
.EAAYLDLQQILENEKDLEEAEEYKEARLVLDSMKLEA
RetrocopyWEAAYLDLQQILENEKDLEEAEEYKEARLVLDSMKLEA

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 6 .35 RPM
SRP051959_heart 0 .02 RPM 9 .05 RPM
SRP051959_kidney 0 .02 RPM 10 .32 RPM
SRP051959_liver 0 .00 RPM 8 .12 RPM
SRP051959_lung 0 .00 RPM 8 .02 RPM
SRP051959_lymph_node 0 .00 RPM 7 .15 RPM
SRP051959_skeletal_muscle 0 .02 RPM 7 .34 RPM
SRP051959_spleen 0 .00 RPM 7 .65 RPM
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_114 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_114 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_cjac_114 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 20 parental genes, and 41 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000142234 retrocopies
Choloepus hoffmanni ENSCHOG000000021122 retrocopies
Callithrix jacchus ENSCJAG00000019848 4 retrocopies
Cavia porcellus ENSCPOG000000121871 retrocopy
Echinops telfairi ENSETEG000000165721 retrocopy
Homo sapiens ENSG000001715303 retrocopies
Loxodonta africana ENSLAFG000000053161 retrocopy
Macaca mulatta ENSMMUG000000118531 retrocopy
Mus musculus ENSMUSG000000420433 retrocopies
Otolemur garnettii ENSOGAG000000101981 retrocopy
Ochotona princeps ENSOPRG000000024604 retrocopies
Procavia capensis ENSPCAG000000118491 retrocopy
Pongo abelii ENSPPYG000000155792 retrocopies
Pan troglodytes ENSPTRG000000170132 retrocopies
Rattus norvegicus ENSRNOG000000483421 retrocopy
Sorex araneus ENSSARG000000099431 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000098401 retrocopy
Tupaia belangeri ENSTBEG000000060346 retrocopies
Tarsius syrichta ENSTSYG000000005141 retrocopy
Vicugna pacos ENSVPAG000000015611 retrocopy



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