RetrogeneDB ID: retro_mmul_2358

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 8:97547510..97547795(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ORMDL2
• Ensembl ID: ENSMMUG00000006292
• Aliases: None
• Description: ORM1-like 2 (S. cerevisiae) [Source:HGNC Symbol;Acc:16037]

Sequence

>retro_mmul_2358
CTGGCAGGTTATGTACTTCCTGCATATGGGGAAAGGGACGTCCTTTGAGACCCCCTTAACAAGGAAAGGCTTGACTACTG
ACACTCTGGGAGCAGATGGACTACAGGCTCCAGGTACCTCTGCCAGAAAGTTCCTTAGCATCTCTCCTATGGCACTCTAC
CTCCTGACAGCTTCCAAGCCAGGTGTGATGCTGCTTCCTTCCTCATCAATACGGCCTCATTGTTCAGCTTATTGCTGCCT
AAGCTGCCCCAGTTCCATGGGGTTCCTATCTGCAGCATCAACAAA

Alignment

ORF - retro_mmul_2358 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.67 %
• Parental protein coverage: 62.09 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  LAMYV-FLHTVKGTPFETPD-QGKARLLTHWEQMDYGLQF-TSSRKFLSISPITTHLKAFE-DIKYDAAH
          LA.YV.FLH..KGT.FETP..QGKA.LLT.WEQMDY.LQ..TS.RKFLSISP....L.........DAA.
Retrocopy LAGYV>FLHMGKGTSFETPL>QGKA*LLTLWEQMDYRLQV<TSARKFLSISPMALYLLTAS<QARCDAAS

Parental  FLINTASLLSVLLPKLPQFHGVRVFGINK
          FLINTASL.S.LLPKLPQFHGV....INK
Retrocopy FLINTASLFSLLLPKLPQFHGVPICSINK

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	3.81 RPM
SRP007412_brain_prefrontal_cortex	0.16 RPM	3.01 RPM
SRP007412_cerebellum	0.06 RPM	3.87 RPM
SRP007412_heart	0.00 RPM	3.53 RPM
SRP007412_kidney	0.00 RPM	14.79 RPM
SRP007412_liver	0.00 RPM	22.96 RPM
SRP007412_testis	0.15 RPM	36.22 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_2358 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_2358 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_2358 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 13 parental genes, and 23 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000003047	2 retrocopies	retro_amel_140, retro_amel_735,
Canis familiaris	ENSCAFG00000000071	8 retrocopies	retro_cfam_1078, retro_cfam_1248, retro_cfam_1512, retro_cfam_1786, retro_cfam_187, retro_cfam_335, retro_cfam_576, retro_cfam_972,
Choloepus hoffmanni	ENSCHOG00000009601	1 retrocopy	retro_chof_2232,
Erinaceus europaeus	ENSEEUG00000015224	1 retrocopy	retro_eeur_16,
Felis catus	ENSFCAG00000013964	1 retrocopy	retro_fcat_895,
Macropus eugenii	ENSMEUG00000014896	1 retrocopy	retro_meug_767,
Microcebus murinus	ENSMICG00000010920	1 retrocopy	retro_mmur_212,
Myotis lucifugus	ENSMLUG00000003575	1 retrocopy	retro_mluc_901,
Macaca mulatta	ENSMMUG00000006292	1 retrocopy	retro_mmul_2358 ,
Macaca mulatta	ENSMMUG00000014316	1 retrocopy	retro_mmul_2432,
Mustela putorius furo	ENSMPUG00000000911	2 retrocopies	retro_mputfur_452, retro_mputfur_738,
Mus musculus	ENSMUSG00000025353	1 retrocopy	retro_mmus_2646,
Otolemur garnettii	ENSOGAG00000001695	2 retrocopies	retro_ogar_3016, retro_ogar_951,