RetrogeneDB ID:

retro_cjac_38

Retrocopy
location
Organism:Marmoset (Callithrix jacchus)
Coordinates:X:119390005..119390341(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSCJAG00000023122
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSCJAG00000008207
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_cjac_38
ATGTTCGCCTGCGCCAAGCTCGCCTGCACCCCCGCTCTGATCCGAGCTGGATCCAGAGTTGCATACAGACCGATTTCTGC
ATCAGTGTTATCTCGACCAGAGACTAGGAATGGAGAGGGCTCTACGGTATTTAATGGGGCCCAGAATGGTGTATCTCAGC
TAATCCAGAGGGAGTTTCAGACCAGTGCAATCAGCAGAGACATTGATACTGCTGCCAAATTTATTGGTGCAGGTGCTGCA
ACAGTAGGAGTGGCTGCTATCCTGGGATTTGCCTTGTCTGAAGCTATGGGTCTCTTTTGGTTGATGGTTGCTTTCTTGAT
TTTGTTTGCCATGTAA

ORF - retro_cjac_38 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 100. %
Parental protein coverage: 60.28 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMFACAKLACTPALIRAGSRVAYRPISASVLSRPETRNGEGSTVFNGAQNGVSQLIQREFQTSAISRDIDT
MFACAKLACTPALIRAGSRVAYRPISASVLSRPETRNGEGSTVFNGAQNGVSQLIQREFQTSAISRDIDT
RetrocopyMFACAKLACTPALIRAGSRVAYRPISASVLSRPETRNGEGSTVFNGAQNGVSQLIQREFQTSAISRDIDT
ParentalAAKFIGAGAATVGVA
AAKFIGAGAATVGVA
RetrocopyAAKFIGAGAATVGVA

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 5 .30 RPM 43 .18 RPM
SRP051959_heart 10 .47 RPM 68 .53 RPM
SRP051959_kidney 7 .45 RPM 48 .57 RPM
SRP051959_liver 6 .69 RPM 45 .68 RPM
SRP051959_lung 2 .00 RPM 11 .14 RPM
SRP051959_lymph_node 1 .80 RPM 12 .12 RPM
SRP051959_skeletal_muscle 10 .20 RPM 68 .35 RPM
SRP051959_spleen 1 .70 RPM 13 .38 RPM
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_38 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_38 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_cjac_38 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 20 parental genes, and 39 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000123671 retrocopy
Bos taurus ENSBTAG000000029441 retrocopy
Canis familiaris ENSCAFG000000133662 retrocopies
Choloepus hoffmanni ENSCHOG000000125923 retrocopies
Callithrix jacchus ENSCJAG000000073527 retrocopies
Callithrix jacchus ENSCJAG00000008207 3 retrocopies
retro_cjac_279, retro_cjac_38 , retro_cjac_4183,
Cavia porcellus ENSCPOG000000061941 retrocopy
Dasypus novemcinctus ENSDNOG000000104402 retrocopies
Loxodonta africana ENSLAFG000000107681 retrocopy
Myotis lucifugus ENSMLUG000000128221 retrocopy
Macaca mulatta ENSMMUG000000039541 retrocopy
Monodelphis domestica ENSMODG000000095203 retrocopies
Mustela putorius furoENSMPUG000000139861 retrocopy
Oryctolagus cuniculus ENSOCUG000000121641 retrocopy
Otolemur garnettii ENSOGAG000000275781 retrocopy
Rattus norvegicus ENSRNOG000000015961 retrocopy
Sorex araneus ENSSARG000000067331 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000135724 retrocopies
Tupaia belangeri ENSTBEG000000121591 retrocopy
Tursiops truncatus ENSTTRG000000115243 retrocopies



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