RetrogeneDB ID: retro_mmul_443

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 1:173401957..173402535(+)
• Located in intron of: ENSMMUG00000000245

Retrocopy information

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

Parental gene information

• Parental gene symbol: SEPT14
• Ensembl ID: ENSMMUG00000019864
• Aliases: None
• Description: None

Sequence

>retro_mmul_443
CATGGGTTGTTATCCGATGCCGTGGTAGGGAGTATGTATGAAGTGAAAGTTGGAAAAGGGATGGTCAGAGACCATCACTA
CCCTTGGGGAGTTTTCCAAGTGGAAAATGAAAATCACTGTGACTTCGTTAAGTTCCTAGATATGCTTCTTTGTACCAATA
TGGAGAAATCTAAAAGAAAAAACCCACACTCAGCACTATGAATGTTATAGATATCAAAAACTGCAGAAAATGGGCTTTAC
CGATGTGGGCCCAGACAACCAGCCACTTAGTTTTCAAGACATCTTTGAAGCCAAAAGACAAGACTTCAATGATCAGTGTC
AGAGGGAAGAAGAAGAGTTGAAACAGATTTATGCAGTGAGTCAAGGAGAAAGAAGCAACATTTAAAGAAGCTGAAAAAGA
ACTGCACGACAAGGTCGAGCATCTTAAAACGGTTCAACAGGAGGAGATAAGGAAGCTCGAAGAAGAGAAAAAACAACTGG
AATGAGAAATAATAGATTTTTATAAAATGAAGGCTGCTTCTGAAGCACTGTAGACTCAGCTGAGCACCAATACAAAGAAA
GAAAAACATTGTAAGAGA

Alignment

ORF - retro_mmul_443 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.08 %
• Parental protein coverage: 87.33 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  NALLPFAVVGSMDEVKVGKRMVRGRHYPWGVLQVENENHCDFVKLRDMLLCTNME-NLKEKTHTQHYECY
          ..LL..AVVGSM.EVKVGK.MVR..HYPWGV.QVENENHCDFVK..DMLLCTNME.NLKEKTHTQHYECY
Retrocopy HGLLSDAVVGSMYEVKVGKGMVRDHHYPWGVFQVENENHCDFVKFLDMLLCTNME>NLKEKTHTQHYECY

Parental  RYQKLEKMGFTDVGPDNQPVSFQEIFEAKRQEFYDQCQREEEELKQ-RFMQRVKEKEATFKEAEKELQDK
          RYQKL.KMGFTDVGPDNQP.SFQ.IFEAKRQ.F.DQCQR.EEE....RFMQ.VKEKEATFKEAEKEL.DK
Retrocopy RYQKLQKMGFTDVGPDNQPLSFQDIFEAKRQDFNDQCQR-EEEELK>RFMQ*VKEKEATFKEAEKELHDK

Parental  FEHLKMIQQEEIRKLEEEKKQLEGEIIDFYKMKAASEALQTQLSTDTKKDKHRKK
          .EHLK..QQEEIRKLEEEKKQLE.EIIDFYKMKAASEAL.TQLST.TKK.KH.K.
Retrocopy VEHLKTVQQEEIRKLEEEKKQLE*EIIDFYKMKAASEAL*TQLSTNTKKEKHCKR

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	0.67 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	0.16 RPM
SRP007412_cerebellum	0.00 RPM	0.58 RPM
SRP007412_heart	0.00 RPM	0.00 RPM
SRP007412_kidney	0.00 RPM	0.12 RPM
SRP007412_liver	0.00 RPM	0.04 RPM
SRP007412_testis	0.04 RPM	6.33 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_443 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_443 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_443 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	ENSMMUG00000019864	1 retrocopy	retro_mmul_443 ,