RetrogeneDB ID:

retro_cjac_51

Retrocopy
location
Organism:Marmoset (Callithrix jacchus)
Coordinates:2:69314662..69315100(+)
Located in intron of:ENSCJAG00000019368
Retrocopy
information
Ensembl ID:ENSCJAG00000035228
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSCJAG00000007532
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_cjac_51
ATGGGGAAAAAACAAAACAAGAAGACAGTGGAGGAGGTGCTAGAAGAGGAGGAAGAGGAATATGTGGTGGAAAAAGTTCT
CAACCTTCAAGTGGTAAAGGGCAAAGTGGAGTACCTCCTAAAGTGGAAGGGGTTCTCAGATGAGGACAATACATGGGAGC
CAGAAGAGAATATGGATTGCCCCAACCTCATTGCCGAGTTTCTGAAGTCACAGAAAACAGCACATGAGACAGATAAATCG
GAGGGAGGCAAGTGCAAAGCTGATTCTGATTCTGAAGATAAGGGAGAGGAGAGAAAACCAAAGAAGAAGAAAGAAGAGTC
AGAAAAGCCACGAGGCTTTGCTCAAGGTTTGAAGCCGGAGCGGATTATTGGAGCTACAGACTCTAGTGGAGAGCTCATGT
TCCTAATGAAATGGAAAAACTCTGATGAGGCTGACCTG

ORF - retro_cjac_51 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 90. %
Parental protein coverage: 79.37 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMGKKQNKKKVEEVLEEEEEEYVVEKVLDRRVVKGKVEYLLKWKGFSDEDNTWEPEENLDCPDLIAEFLQS
MGKKQNKK.VEEVLEEEEEEYVVEKVL...VVKGKVEYLLKWKGFSDEDNTWEPEEN.DCP.LIAEFL.S
RetrocopyMGKKQNKKTVEEVLEEEEEEYVVEKVLNLQVVKGKVEYLLKWKGFSDEDNTWEPEENMDCPNLIAEFLKS
ParentalQKTAHETDKSEGGKRKADSDSEDKGEESKPKKKKEEVRLESEKPRGFARGLEPERIIGATDSSGELMFLM
QKTAHETDKSEGGK.KADSDSEDKGEE.KPKKKKEE....SEKPRGFA.GL.PERIIGATDSSGELMFLM
RetrocopyQKTAHETDKSEGGKCKADSDSEDKGEERKPKKKKEE----SEKPRGFAQGLKPERIIGATDSSGELMFLM
ParentalKWKNSDEADL
KWKNSDEADL
RetrocopyKWKNSDEADL

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 .29 RPM 29 .13 RPM
SRP051959_heart 0 .12 RPM 21 .71 RPM
SRP051959_kidney 2 .13 RPM 26 .29 RPM
SRP051959_liver 0 .48 RPM 12 .35 RPM
SRP051959_lung 0 .10 RPM 23 .02 RPM
SRP051959_lymph_node 0 .02 RPM 23 .52 RPM
SRP051959_skeletal_muscle 0 .00 RPM 20 .59 RPM
SRP051959_spleen 0 .02 RPM 25 .11 RPM
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_51 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_51 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_cjac_51 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 29 parental genes, and 120 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000048902 retrocopies
Bos taurus ENSBTAG000000029499 retrocopies
Canis familiaris ENSCAFG000000168321 retrocopy
Choloepus hoffmanni ENSCHOG000000119572 retrocopies
Callithrix jacchus ENSCJAG00000007532 2 retrocopies
retro_cjac_191, retro_cjac_51 ,
Callithrix jacchus ENSCJAG000000079528 retrocopies
Callithrix jacchus ENSCJAG000000188471 retrocopy
Dipodomys ordii ENSDORG000000007162 retrocopies
Erinaceus europaeus ENSEEUG000000048743 retrocopies
Echinops telfairi ENSETEG000000002037 retrocopies
Felis catus ENSFCAG000000060561 retrocopy
Homo sapiens ENSG000001084683 retrocopies
Gorilla gorilla ENSGGOG000000240633 retrocopies
Microcebus murinus ENSMICG000000095104 retrocopies
Myotis lucifugus ENSMLUG000000050302 retrocopies
Mustela putorius furoENSMPUG000000153021 retrocopy
Mus musculus ENSMUSG000000186661 retrocopy
Nomascus leucogenys ENSNLEG000000024354 retrocopies
Oryctolagus cuniculus ENSOCUG000000080213 retrocopies
Otolemur garnettii ENSOGAG000000056589 retrocopies
Ochotona princeps ENSOPRG000000036991 retrocopy
Procavia capensis ENSPCAG000000023812 retrocopies
Pongo abelii ENSPPYG000000088911 retrocopy
Rattus norvegicus ENSRNOG000000086892 retrocopies
Sarcophilus harrisii ENSSHAG000000081921 retrocopy
Sus scrofa ENSSSCG000000175291 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000239863 retrocopies
Tupaia belangeri ENSTBEG0000001493139 retrocopies
Tarsius syrichta ENSTSYG000000047692 retrocopies



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