RetrogeneDB ID: | retro_cjac_2661 | ||
Retrocopy location | Organism: | Marmoset (Callithrix jacchus) | |
| Coordinates: | 5:122540501..122541594(-) | ||
| Located in intron of: | ENSCJAG00000019883 | ||
Retrocopy information | Ensembl ID: | ENSCJAG00000019907 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | DRG2 | ||
| Ensembl ID: | ENSCJAG00000014953 | ||
| Aliases: | None | ||
| Description: | developmentally regulated GTP binding protein 2 [Source:HGNC Symbol;Acc:3030] |
Retrocopy-Parental alignment summary:
>retro_cjac_2661
ATGGGGATCTTAGAGAAGATCTTGGAGATCAAGAAGGAGATTGCTCGGACACGGAAGAACAAAGCCACTGAGTATCATCT
GGGCCTGCTGAATGCTAAACTCGCCAAGTATCGGGCCCAGCTCCTGGAACCATCCAAATCCACCTCATCCAAAGGAGAGG
GCTTTGATGTCATGAATTTTGGCGATGCCCACATGGAGCTAATTGGATTTCCCTCTGTGGGTAAGTCCACATTCTTGAGT
CTGATGACCTCCACGGCCATCGAGGCGGCGTCCTATGAGTTCACCACTCTGACATGTGTTCCTGGGGTCGTTGAATACAA
AGGTAGCAACATCCAGCTCCTGGACCTTCCCGGAATCATTGAAGGCACAGCACAAGGAAAAAGGCCATGGCCAGCAGGTG
ATTGCTGTGGCATGCACGGCCGATGTCGTCATCATGTTGCTGGATGCCACCAAGGGAGAGGTGCAGAGGTCTCTGCTGGA
GAAGGAGCTGGAGTCCATGGGCATCCACCTCAGCGAGCACAAGCCTAACATCTACTTCAAGCCCAAGAGAGGCGGCGGCA
ACTCCTTTAACTCGACAGTCACACTGACCCAATGCTCGGAAAAGCTGGTGCAGCTCATCCTGCACGAATACAAGATCTTC
AATGCAGACGTGCTCTTCCAAGAAGACTGTTCCCCAGATGAGTTCATCGATGTGATCATGGGCAACTGGGTGTACATGCC
TTGCATGTATGTTTATAACAAAATCGACCAGATCTCCATGGAAGAGGTGGACCGCCTGGCCCAAAAACCCAACAGTGTGG
TCACCAGCTATGGCATGAAGCTGAACTTGGTCTACCTGCTGGAGATGCTTTGGGAGTACTTGGCCCTGACCTGCATCTAC
ACCAAGAAGATAGGAGAGAGGCCAGACTTCCCAGACACTATCATTCTCCAGAAAGGGGCCTCAGTGGAGCACGTGTGCCA
CCGCATCCACCGGTCACTTGCCAGCCAGTTCCAGTATGCCCTGGTGTGGGGCACCAGCACAAAGTACAGTCCGCAGTGGG
TGGGCCTGACCCACACCATGGAGCCTGAGGACGTCATCCAGATCGTGAAGAAG
ORF - retro_cjac_2661 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 87.95 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MGILEKISEIEKEIARTQKNKATEYHLGLLKAKLAKYRAQLLEPSKSASSKGEGFDVMKSGDARVALIGF |
| MGILEKI.EI.KEIART.KNKATEYHLGLL.AKLAKYRAQLLEPSKS.SSKGEGFDVM..GDA...LIGF | |
| Retrocopy | MGILEKILEIKKEIARTRKNKATEYHLGLLNAKLAKYRAQLLEPSKSTSSKGEGFDVMNFGDAHMELIGF |
| Parental | PSVGKSTFLSLMTSTASEAASYEFTTLTCIPGVIEYKGANIQLLDLPGIIEGAAQGK-GRGRQVIAVART |
| PSVGKSTFLSLMTSTA.EAASYEFTTLTC.PGV.EYKG.NIQLLDLPGIIEG.AQGK.G.G.QVIAVA.T | |
| Retrocopy | PSVGKSTFLSLMTSTAIEAASYEFTTLTCVPGVVEYKGSNIQLLDLPGIIEGTAQGK>GHGQQVIAVACT |
| Parental | ADVVIMMLDATKGEVQRSLLEKELESVGIRLNKHKPNIYFKPKKGGGISFNSTVTLTQCSEKLVQLILHE |
| ADVVIM.LDATKGEVQRSLLEKELES.GI.L..HKPNIYFKPK.GGG.SFNSTVTLTQCSEKLVQLILHE | |
| Retrocopy | ADVVIMLLDATKGEVQRSLLEKELESMGIHLSEHKPNIYFKPKRGGGNSFNSTVTLTQCSEKLVQLILHE |
| Parental | YKIFNAEVLFREDCSPDEFIDVIVGNRVYMPCLYVYNKIDQISMEEVDCLARKPNSVVISCGMKLNLDYL |
| YKIFNA.VLF.EDCSPDEFIDVI.GN.VYMPC.YVYNKIDQISMEEVD.LA.KPNSVV.S.GMKLNL.YL | |
| Retrocopy | YKIFNADVLFQEDCSPDEFIDVIMGNWVYMPCMYVYNKIDQISMEEVDRLAQKPNSVVTSYGMKLNLVYL |
| Parental | LEMLWEYLALTCIYTKKRGQRPDFTDAIILRKGASVEHVCHRIHRSLASQFKYALVWGTSTKYSPQRVGL |
| LEMLWEYLALTCIYTKK.G.RPDF.D.IIL.KGASVEHVCHRIHRSLASQF.YALVWGTSTKYSPQ.VGL | |
| Retrocopy | LEMLWEYLALTCIYTKKIGERPDFPDTIILQKGASVEHVCHRIHRSLASQFQYALVWGTSTKYSPQWVGL |
| Parental | THTMEHEDVIQIVKK |
| THTME.EDVIQIVKK | |
| Retrocopy | THTMEPEDVIQIVKK |
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 .07 RPM | 11 .58 RPM |
| SRP051959_heart | 0 .09 RPM | 9 .19 RPM |
| SRP051959_kidney | 0 .09 RPM | 18 .41 RPM |
| SRP051959_liver | 0 .04 RPM | 11 .96 RPM |
| SRP051959_lung | 0 .03 RPM | 13 .40 RPM |
| SRP051959_lymph_node | 0 .00 RPM | 15 .20 RPM |
| SRP051959_skeletal_muscle | 0 .13 RPM | 10 .57 RPM |
| SRP051959_spleen | 0 .04 RPM | 14 .41 RPM |
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_2661 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_2661 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cjac_2661 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000014953 | 1 retrocopy |
retro_cjac_2661 ,
|
| Mus musculus | ENSMUSG00000020537 | 1 retrocopy | |
| Otolemur garnettii | ENSOGAG00000033863 | 1 retrocopy |