RetrogeneDB ID: retro_mmul_968

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 12:95869607..95871024(-)
• Located in intron of: ENSMMUG00000015167

Retrocopy information

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

Parental gene information

• Parental gene symbol: GPR108
• Ensembl ID: ENSMMUG00000008695
• Aliases: None
• Description: G protein-coupled receptor 108 [Source:HGNC Symbol;Acc:17829]

Sequence

>retro_mmul_968
GGCTGGGCCTCCAGGAAGCAGAAGTCCCTGCTGGTGGGGTTCAGTCTCAGCCGGGTTCAATCTGGCAGAGTTCGCTCCTA
TTCAACCCGGGATTTCCAGGACTGCCCTCTCCAGAAAAACAGTAGCAGCTTCCTGGTCCTGTTCCTCATCAACACCAAGG
ATCTGAAGGTCCAGGTGCGAAGTATGGAGAGCAGAAGTTGTTTATCTTTCCCAGGCTCCTCCCCGAAGTGCCCTCCGAAC
CAGGGCTCCCAAAGCCACAGGCCACAGTCCCCTGCAAGGTGGATGGCGGAGGGACCTCTGCAGCCAGCAAGCCCAAGTCA
ACACCCGCAGTGCCTCAGGGTCCTAGCGGGAAGGACGAGGAGCTGGTGTTGGGCCTGAGCCACCTCAACAACTCCTACAA
CTTCAGTTTCCACGTGGTGATCGGCTCTCAGGCGGAAGAAGGCCAGTACAGCCTGAACTTCCACAACTGCAACAATTCAG
TGCCAGGAAAGGAGCATCCATTTGACATCACGGTGATGATCCAGGAGAAGAACCCCGATGGCTTCCTGTCGGCGGCGGAG
ATGCCCCTTTTCAAGCTCTACATAGTCATGTCCGTCTGCTTCCTGGCCGCTGGCATCTTCTGGGTGTCCATCCTCTGCAG
GAACATGTACAGCGTCTTCAAGATCCACTGGCTCATGGCGGCCTTGGCCTTCACCAAGAGCATCTCTCTCCTCTTCCATA
GTATCAACTACTACTTCATCAACAGCCAGAGCCACCCCATCGAAGGCCTCGCCGTCATGTACTACATCACACACCTGCTG
AAGGGTGCCCTTCTCTTCATCACCGTCGCCCTGATCGGCTCAGGTTGGGCCTTCATCAAGTACGTCCTGTCGGATAAGGA
GAAGAAGGTCTTTAGGATCATGATCCCCATGCAGGTCCTGGCCAACGTGGCCTACATCGGCATCGAGTCCCGCGAGGAGG
GCGCCAGTGACTATGTGCTGTGGAAGGAGATTTTGTTCCTGATGGATCTCATCTGCTGCAGCGCCATCCTGTTTCCCGTA
GTCTGGTCCATCTGGCATCTCCAGGACACGTCTGGCACAGACGGGAAGGTGGCGGTGAACCTGGCCAAGCTGAAGCTGTT
CCAGCATTACTGTGTCACGGTCATCTGCTACATCTACTTCACCCGCATCATCGCCATCCTGTAGCAGGTGGCTGTCCCCT
TTCAGTGGCAGTGGCTGTACCAGCTCTTGGTGGAGGGCTCCACCCTGGCCTTCTTCATGCTCCCGGGCTACAAGTTCCAG
CCCACAGGGACAACCCATACCTGCAGCTGCCCCAGGAGGACGAGGAGGATGTTCAGATGGAACAAGTAATGACCGACTCT
GGGTTCGGGGAAGGCCTCTCCAAAGTCAACAAAATAGCCAGCGGGCGGGAACTGTTA

Alignment

ORF - retro_mmul_968 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.97 %
• Parental protein coverage: 92.04 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  GLREAEEKSLLVGFSLSRVRSGRVHSYSTRDFQDCPLQKNSSSFLVLFLINTKDLQVQVR-KYGEQKKLF
          G......KSLLVGFSLSRV.SGRV.SYSTRDFQDCPLQKNSSSFLVLFLINTKDL.VQVR.KYGEQK.LF
Retrocopy GWASRKQKSLLVGFSLSRVQSGRVRSYSTRDFQDCPLQKNSSSFLVLFLINTKDLKVQVR<KYGEQK-LF

Parental  IFPGLLPEAPSEPGLPKPQATVPRKVDGGGTAAASKPKSTPAVPQGPSGKDKELVLGLSHLNNSYNFSFH
          IFP.LLPE.PSEPGLPKPQATVP.KVDGGGT.AASKPKSTPAVPQGPSGKD.ELVLGLSHLNNSYNFSFH
Retrocopy IFPRLLPEVPSEPGLPKPQATVPCKVDGGGTSAASKPKSTPAVPQGPSGKDEELVLGLSHLNNSYNFSFH

Parental  VVVGSQAEEGQYSLNFHNCNNSVPGKEHPFDITVMIREKNPDGFLSAAEMPLFKLYLVMSACFLAAGIFW
          VV.GSQAEEGQYSLNFHNCNNSVPGKEHPFDITVMI.EKNPDGFLSAAEMPLFKLY.VMS.CFLAAGIFW
Retrocopy VVIGSQAEEGQYSLNFHNCNNSVPGKEHPFDITVMIQEKNPDGFLSAAEMPLFKLYIVMSVCFLAAGIFW

Parental  VSILCRNMYSVFKIHWLMAALAFTKSISLLFHSINYYFINSQGHPIEGLAVMHYITRLLKGALLFITIAL
          VSILCRNMYSVFKIHWLMAALAFTKSISLLFHSINYYFINSQ.HPIEGLAVM.YIT.LLKGALLFIT.AL
Retrocopy VSILCRNMYSVFKIHWLMAALAFTKSISLLFHSINYYFINSQSHPIEGLAVMYYITHLLKGALLFITVAL

Parental  IGSGWAFIKCVLSDKEKKVFGIVISMQVLANVAYIVIESREEGASDYVLWKEILFLVDLICCGAILFPVV
          IGSGWAFIK.VLSDKEKKVF.I.I.MQVLANVAYI.IESREEGASDYVLWKEILFL.DLICC.AILFPVV
Retrocopy IGSGWAFIKYVLSDKEKKVFRIMIPMQVLANVAYIGIESREEGASDYVLWKEILFLMDLICCSAILFPVV

Parental  WSIRHLQDASGTDGKVAVNLAKLKLFRHYYVMVICYVYFTRIIAILLQVAVPFQWQWLYQLLVEGSTLAF
          WSI.HLQD.SGTDGKVAVNLAKLKLF.HY.V.VICY.YFTRIIAIL.QVAVPFQWQWLYQLLVEGSTLAF
Retrocopy WSIWHLQDTSGTDGKVAVNLAKLKLFQHYCVTVICYIYFTRIIAIL*QVAVPFQWQWLYQLLVEGSTLAF

Parental  FVLTGYKFQPTG-DNPYLQLPQEDEEDVQMEQVMTDSGFREGLSKVNKTASGRELL
          F.L.GYKFQPTG.DNPYLQLPQEDEEDVQMEQVMTDSGF.EGLSKVNK.ASGRELL
Retrocopy FMLPGYKFQPTG<DNPYLQLPQEDEEDVQMEQVMTDSGFGEGLSKVNKIASGRELL

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	5.71 RPM
SRP007412_brain_prefrontal_cortex	0.16 RPM	10.39 RPM
SRP007412_cerebellum	0.39 RPM	7.49 RPM
SRP007412_heart	0.35 RPM	9.36 RPM
SRP007412_kidney	0.12 RPM	27.93 RPM
SRP007412_liver	0.20 RPM	30.64 RPM
SRP007412_testis	0.38 RPM	112.85 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_968 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_968 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_968 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	ENSMMUG00000008695	1 retrocopy	retro_mmul_968 ,