RetrogeneDB ID: retro_mmul_2312

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 8:127515836..127516547(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRS2
• Ensembl ID: ENSMMUG00000001018
• Aliases: None
• Description: None

Sequence

>retro_mmul_2312
TCTGACCTGTGTGGGCCTGTCAGCTATATGTGGCAGGTGAAATGCACTGGTTTAGAACTTCTGATGTCTCTTAAGCCACT
TTAGCCAACGTAGCCCCAGTATTTACTGCAACAAAATTTGACAAACAGGGAAATGTTACTTCTTTTGAAAGGAAGAAAAT
GGACTTACACCAAGAGTTAAGTCTTCAAGACAGAGATTTGAGATTTCAGCATGTAATGAGTATCACAACCAAAAGCAATA
GGTTTATCATGACAATGGAGTATTTGAAAGCTGTGATAACTCCAGAGTGTCTCCTGATATTAGATGATGGTAACAAACTC
AGAGCAATGGCTGTTCCGGGAACTCCCTTCACAGTTGTCCGGAAGGGTCAACCTGTTACATACCCTTTACCTTTTGAGTT
TAGTGCCATGGAAGCACCCTGCAATACCGGATCAACACACTTTAGAGGAAACGTAACGTTTTGCAGACACTGACCCCTGA
GACCTTAGAAGCTTTGGTGGACTCCAAACATTCTTCTGTGGACAGAAGCAAACTGCATATTTTACTATAGAATGACAAAA
GTCTATCAGAGTTAGAAACAGATATTAAATTTTTCCAAGACTCAATTTTGGAGATCCTGGATGAGGAAAAGTTACTGGAA
GAGCTCTGTCTATCAAAATGAGTGCCCCACGTGTCTTTGAAAAGAGCAGCCCTGGGATTCACCATGCAGAA

Alignment

ORF - retro_mmul_2312 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.49 %
• Parental protein coverage: 53.95 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  AQLCGPG-RLRVAGEVHRLRTSDVSQATLASVAPVFTVTKFDKQGNVTSFEKKKTELYQELGLQARDLRF
          ..LCGP...L.VAGE.H..RTSDVS.ATLA.VAPVFT.TKFDKQGNVTSFE.KK..L.QEL.LQ.RDLRF
Retrocopy SDLCGPV<QLYVAGEMHWFRTSDVS*ATLANVAPVFTATKFDKQGNVTSFERKKMDLHQELSLQDRDLRF

Parental  QHVMSITVRNNRIIMRMEYLKAVITPECLLILDYRNLNLEQWLFRELPSQLSGEGQLVTYPLPFEFRAIE
          QHVMSIT...NR.IM.MEYLKAVITPECLLILD..N..L........P......GQ.VTYPLPFEF.A.E
Retrocopy QHVMSITTKSNRFIMTMEYLKAVITPECLLILDDGN-KLRAMAVPGTPFTVVRKGQPVTYPLPFEFSAME

Parental  A-LLQYWINTLQGKLSILQPLILETLDALVDPKHSSVDRSKLHILLQNGKSLSELETDIKIFKESILEIL
          A..LQY.INTL..K...LQ.L..ETL.ALVD.KHSSVDRSKLHILL.N.KSLSELETDIK.F..SILEIL
Retrocopy A<TLQYRINTL*RKRNVLQTLTPETLEALVDSKHSSVDRSKLHILL*NDKSLSELETDIKFFQDSILEIL

Parental  DEEELLEELCLS-KWSDPQVFEKSSAGIDHAE
          DEE.LLEELCLS.K.S.P.VFEKSS.GI.HAE
Retrocopy DEEKLLEELCLS<KMSAPRVFEKSSPGIHHAE

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	4.82 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	5.32 RPM
SRP007412_cerebellum	0.00 RPM	8.27 RPM
SRP007412_heart	0.00 RPM	12.25 RPM
SRP007412_kidney	0.12 RPM	7.39 RPM
SRP007412_liver	0.00 RPM	3.29 RPM
SRP007412_testis	4.33 RPM	1.66 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_2312 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_2312 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_2312 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4006
Pan troglodytes	retro_ptro_2720
Gorilla gorilla	retro_ggor_2689

---

Parental genes homology:

Parental genes homology involve 7 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000006424	1 retrocopy	retro_dnov_1486,
Equus caballus	ENSECAG00000013105	1 retrocopy	retro_ecab_1032,
Homo sapiens	ENSG00000124532	1 retrocopy	retro_hsap_4006,
Gorilla gorilla	ENSGGOG00000009098	1 retrocopy	retro_ggor_2689,
Macaca mulatta	ENSMMUG00000001018	2 retrocopies	retro_mmul_2312 , retro_mmul_878,
Pongo abelii	ENSPPYG00000016278	1 retrocopy	retro_pabe_939,
Pan troglodytes	ENSPTRG00000017774	1 retrocopy	retro_ptro_2720,