RetrogeneDB ID:

retro_cjac_647

Retrocopy
location
Organism:Marmoset (Callithrix jacchus)
Coordinates:1:189599904..189600219(-)
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:ENSCJAG00000013611
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_cjac_647
TCAGACGCAGCCGTAAACACCAGCTCCGAAATCACCACCCAGGACTTGAAGGAGAAGAAGGAAGTTGTGGAAGAGGCGGA
AAATGGAAGAGACGCCCCTGCTAACGGAAATATTAATGAGGACCATGGGGAGCAGGGGGCTGACAATGAGGTAGCTGAGG
AAGAGGAAGAAGGTGGGGAGGAAGAGGAGGAAGAAGAAAGAGATGGTGAGGATGGAGATAAAGATGAGGATGCTGAGCCT
GCTACAGTCAAGTGCACAGCTGAAGATGATGAGGATAATGATGTCGATACCAAGAAGCAGGAGACCGACGAGGAC

ORF - retro_cjac_647 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 80.73 %
Parental protein coverage: 98.2 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalSDTAVDTSSEITTKDLKEKKEVVEEAENGRDAPANGNAENEENGEQEADNEVDEEEEEGGEEEEEEEEGD
SD.AV.TSSEITT.DLKEKKEVVEEAENGRDAPANGN..NE..GEQ.ADNEV.EEEEEGGEEEEEEE..D
RetrocopySDAAVNTSSEITTQDLKEKKEVVEEAENGRDAPANGNI-NEDHGEQGADNEVAEEEEEGGEEEEEEER-D
ParentalGEEEDGDEDEEAESATGKRAAEDDEDDDVDTKKQKTDED
G..EDGD.DE.AE.AT.K..AEDDED.DVDTKKQ.TDED
RetrocopyG--EDGDKDEDAEPATVKCTAEDDEDNDVDTKKQETDED

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 .18 RPM 186 .73 RPM
SRP051959_heart 0 .16 RPM 92 .81 RPM
SRP051959_kidney 0 .07 RPM 143 .70 RPM
SRP051959_liver 0 .24 RPM 61 .97 RPM
SRP051959_lung 0 .52 RPM 170 .66 RPM
SRP051959_lymph_node 0 .87 RPM 182 .60 RPM
SRP051959_skeletal_muscle 0 .00 RPM 36 .60 RPM
SRP051959_spleen 0 .40 RPM 178 .24 RPM
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_647 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_647 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_cjac_647 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 12 parental genes, and 37 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000025492 retrocopies
Canis familiaris ENSCAFG000000325964 retrocopies
Callithrix jacchus ENSCJAG00000013611 9 retrocopies
Felis catus ENSFCAG000000047801 retrocopy
Homo sapiens ENSG000001875146 retrocopies
Gorilla gorilla ENSGGOG000000098744 retrocopies
Myotis lucifugus ENSMLUG000000026282 retrocopies
Macaca mulatta ENSMMUG000000121401 retrocopy
Mus musculus ENSMUSG000000262384 retrocopies
Nomascus leucogenys ENSNLEG000000141352 retrocopies
Rattus norvegicus ENSRNOG000000185841 retrocopy
Sus scrofa ENSSSCG000000236901 retrocopy



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