RetrogeneDB ID: retro_mmul_1163

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 15:88567625..88568181(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMMUG00000008434
• Aliases: None
• Description: None

Sequence

>retro_mmul_1163
ATGTTACTTCAACAGTAACTGAATGATGCTCACAACAAAGCTGACAATCAAGAAAAAACGATAATTGATATTCAAGCCAA
ATGTGATGCTAGAGTACAAAACCTTCACACTGAGTGCAGAAAGCACCATCTTTTGCTAGGAGAAGACTATAAGAAGTTGA
TCAATGAATTTAATCATTTGAAAGACAAACAATGTCAATATGAAAGATAGAAAGCAGAAAGAGTAGTTGTGAGACAACGT
CAACAAAACGGGATGATGTCCTAAACAAACAACAACAAAAGCTTTGCTGGATGCTTCATTGCGTCACTGCATCCATTTGG
AATGTGAGATGCAGGATTCAAGGGAGAAATTAGGCCTGATGAGAAGTCAATTTCAAGAAATACAGGATCAACTTACAGCG
ACTATAAGACGTACCAAGGAGACGCAAGGCCATGTACAAAAGCATGACATAGAAAATTCCATATTAAGAAATACAATTAA
AAAGTAAGATGACCAAATTGAGCAGATTCAGAAAATCCTGCAAAGTTCAAGTTTGATGGAGCAGGTGTTGCAAGAA

Alignment

ORF - retro_mmul_1163 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.67 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MLLQQQLDDARNKADNREKAILNIQARCDARVQNFQAECRKHRLLLQEDNKRLVNELNHLKEKECQNEKE
          MLLQQ.L.DA.NKADN.EK.I..IQA.CDARVQN...ECRKH.LLL.ED.K.L.NE.NHLK.K.CQ.E..
Retrocopy MLLQQ*LNDAHNKADNQEKTIIDIQAKCDARVQNLHTECRKHHLLLGEDYKKLINEFNHLKDKQCQYER*

Parental  KAEREVVVRQLQQKRNDVLN-KQSSTKALLDASSRHCVHLENEMQDSRKKLDQIRSQFQEIQDQLTATIR
          KAER.VVVRQ.Q...N.....KQ..TKALLDAS.RHC.HLE.EMQDSR.KL...RSQFQEIQDQLTATIR
Retrocopy KAER-VVVRQRQ--QNGMMS>KQTTTKALLDASLRHCIHLECEMQDSREKLGLMRSQFQEIQDQLTATIR

Parental  CTKKTEGHAHKLEVENAMIRKTIKKQDDQIERLEKILQRSSLMLPVFRK
          .TK.T.GH..K...EN...R.TIKK.DDQIE...KILQ.SSLM..V...
Retrocopy RTKETQGHVQKHDIENSILRNTIKK*DDQIEQIQKILQSSSLMEQVLQE

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	0.00 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	0.00 RPM
SRP007412_cerebellum	0.00 RPM	0.00 RPM
SRP007412_heart	0.00 RPM	0.00 RPM
SRP007412_kidney	0.00 RPM	0.00 RPM
SRP007412_liver	0.00 RPM	0.00 RPM
SRP007412_testis	0.04 RPM	15.64 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_1163 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_1163 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_1163 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Pongo abelii	retro_pabe_3423

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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	ENSMMUG00000008434	1 retrocopy	retro_mmul_1163 ,