RetrogeneDB ID: retro_mmul_1436

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 2:68428662..68429172(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C8orf33
• Ensembl ID: ENSMMUG00000016084
• Aliases: None
• Description: chromosome 8 open reading frame 33 [Source:HGNC Symbol;Acc:26104]

Sequence

>retro_mmul_1436
TTAGACGATGAAGGCAGCGCAGCGTCAAAAATACAAAAGAATAAGAAGAAAACCCGGAACACGGCCTCTGTGGCAAATGG
AGGCTAGAATGCCTCAGAGAAACCTGCCCCAGAGGAAGTTCCCCTAAGGGCTGAGGCCCAGGTGCAGCAGTTGGCCCAGG
AATTGGCTTGATGTGTGGAGCAACTGGAACTGGGCCACAAGAGGCAAAAACCCACCCTGACACAGGAAGAGCAGGTTATT
GGAGCAATCCAAACCCTGCGCAGCAAAAGAACGTCCCTGCCCCGGAAGAGGCAGCTGATGCCTTCCTTGTTTGGAGACTA
CAGGGCTCAGATAGAAGCCGAATGGTGTGAGGGCCTGCGGGCTCACAGAGCTGCTGCTTATTCAGCCCAGGTGTAGCCTG
TAGATGGAGCCACCAGAAACAAGAGCCAAAGGGTCTGCAGGCCTCGCCCTTTATGGAGAGCCAAAGCCACTCTGGACACT
CATGATGAAGAGTTTAGGTTCAGTTTCTTT

Alignment

ORF - retro_mmul_1436 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.29 %
• Parental protein coverage: 74.35 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LGDEGSAASKKQKNKKKTRNRASVANGGEKASEKPAPEEVPLSAEAQARAGLAQELAWCVEQLELGLKRQ
          L.DEGSAASK.QKNKKKTRN.ASVANGG..ASEKPAPEEVPL.AEAQ....LAQELA.CVEQLELG.KRQ
Retrocopy LDDEGSAASKIQKNKKKTRNTASVANGG*NASEKPAPEEVPLRAEAQVQQ-LAQELA*CVEQLELGHKRQ

Parental  KPTPKQKEQAIGAIRTLRSKRTPLPRKRQLMHSLFGDYRAQMEAEWREALRALRSAAYLAQVQPVDGATR
          KPT..Q.EQ.IGAI.TLRSKRT.LPRKRQLM.SLFGDYRAQ.EAEW.E.LRA.R.AAY.AQV.PVDGATR
Retrocopy KPTLTQEEQVIGAIQTLRSKRTSLPRKRQLMPSLFGDYRAQIEAEWCEGLRAHRAAAYSAQV*PVDGATR

Parental  KKSRRVCRPRPIGRAKATLDTPDEEFRFNFF
          .KS.RVCRPRP..RAKATLDT.DEEFRF.FF
Retrocopy NKSQRVCRPRPLWRAKATLDTHDEEFRFSFF

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	4.03 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	10.87 RPM
SRP007412_cerebellum	0.00 RPM	4.97 RPM
SRP007412_heart	0.00 RPM	5.42 RPM
SRP007412_kidney	0.00 RPM	5.87 RPM
SRP007412_liver	0.00 RPM	4.08 RPM
SRP007412_testis	0.00 RPM	7.92 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_1436 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_1436 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_1436 has 0 orthologous retrocopies within eutheria group .

---

Parental genes homology:

Parental genes homology involve 5 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000015805	3 retrocopies	retro_dnov_1578, retro_dnov_406, retro_dnov_521,
Macaca mulatta	ENSMMUG00000016084	1 retrocopy	retro_mmul_1436 ,
Monodelphis domestica	ENSMODG00000028791	2 retrocopies	retro_mdom_1056, retro_mdom_388,
Mustela putorius furo	ENSMPUG00000005972	1 retrocopy	retro_mputfur_1096,
Rattus norvegicus	ENSRNOG00000034107	1 retrocopy	retro_rnor_436,