RetrogeneDB ID: retro_mmul_452

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 1:200780878..200781505(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: ALKBH8
• Ensembl ID: ENSMMUG00000005437
• Aliases: None
• Description: None

Sequence

>retro_mmul_452
TTGCAGGGTGAGAATCTGAATCCAGCCTGAGCTGAAGAGGAGAGGCTAGTTGTTGCCAATGGTGGTTTAGGTAATGGTGT
GAGTAGAAACCAACTGCTCCTGGTTTTAGAGAAATGTGGACTGGTGGATGCTCTCTTAATGCCACCTAACAAGCCCTTCT
CATTTGAAAGATACAAAACTACAGAAGAATCTAAGAGAGCCTATGTTACCCTCAATGGGAAAGAAATAGTGGATGATTTA
GGATGAAAGATTATTCTGTATTTGAATTTTGTGGAAAAAGCACAATGGAAGGAATTGGGGCCTCAAGTCTTACTACCAGG
CCTCATAGTAGTAGAAGAAATAATTTCTTCTGAGGATGAGAAAATTCTTTTGGAAAGTGTTGATTGAACGAAAGATATGG
ACCATCAAAATTTTCAAAAATGCTTGAAACACAGAAGAGTAAAGCATTTTGGTTATGAGTTCCACTGTGACAACAACAAT
GTAGATAAAGATAAGTCTTTGCCTGGGGGTCTTCCTGATGTTTGTGATAGCTTTTTGGAGAAATAGCTGAGGGAGGGTAA
CATTAAACATAAACCTGAACAATTGACCATAAATCAATATTAAGCTGGGCATGACTGCCATGGATTT

Alignment

ORF - retro_mmul_452 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.9 %
• Parental protein coverage: 87.82 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LRHEGIETVSYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDVLLMPPNKPYSFARYKTTEESKRAYVT
          L..E...........LVVANGGLGNGVSRNQLL.VLEKCGLVD.LLMPPNKP.SF.RYKTTEESKRAYVT
Retrocopy LQGENLNPA*AEEERLVVANGGLGNGVSRNQLLLVLEKCGLVDALLMPPNKPFSFERYKTTEESKRAYVT

Parental  LNGKEVVDDLGQKIILYLNFVEKAQWKELRPQALPPGLMVVEEIISSEEEKMLLESVDWTEDTDNQNSQK
          LNGKE.VDDLG.KIILYLNFVEKAQWKEL.PQ.L.PGL.VVEEIISSE.EK.LLESVD.T.D.D.QN.QK
Retrocopy LNGKEIVDDLG*KIILYLNFVEKAQWKELGPQVLLPGLIVVEEIISSEDEKILLESVD*TKDMDHQNFQK

Parental  SLKHRRVKHFGYEFHYENNNVDKDKPLPGGLPDICDSFLEKWLREGYIKHKPDQMTINQYEPGQDCHGF
          .LKHRRVKHFGYEFH..NNNVDKDK.LPGGLPD.CDSFLEK.LREG.IKHKP.Q.TINQY..G.DCHGF
Retrocopy CLKHRRVKHFGYEFHCDNNNVDKDKSLPGGLPDVCDSFLEK*LREGNIKHKPEQLTINQY*AGHDCHGF

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP007412_brain	0.00 RPM	8.40 RPM
SRP007412_brain_prefrontal_cortex	0.08 RPM	7.77 RPM
SRP007412_cerebellum	0.00 RPM	6.84 RPM
SRP007412_heart	0.00 RPM	3.06 RPM
SRP007412_kidney	0.12 RPM	4.69 RPM
SRP007412_liver	0.00 RPM	2.14 RPM
SRP007412_testis	0.00 RPM	3.47 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_452 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_452 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_452 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Macaca mulatta	ENSMMUG00000005437	1 retrocopy	retro_mmul_452 ,