RetrogeneDB ID: retro_mmul_467

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 1:15128311..15128977(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: IMPA1
• Ensembl ID: ENSMMUG00000002628
• Aliases: None
• Description: None

Sequence

>retro_mmul_467
GAAATGAATGTTATACCGAAAGGTTCTCCAGTTGATTTGGTAACTGCTGCGGACCAAAAAGTTGAAGAAATGCTTATCTC
TTCCATAAAAGAAAAGTACCCATCTCAGTTTCATTGGTGAGGAATCTGTGGCAGCGGGGAGAAAAGTGCCTTAACTAACA
ACCCCACGTGGATCATTGACCCTATTGATGGAACAACTAACTTTGTACATAGATTTCCTTTTGTAGCTGTTTCAATCGGC
TTTGCTGTAAATAAAAAGATATAATTTGGAGTTGTATACAGTTATGCGGGAGATAAGATGTACACTTCCAGGAAAGAAAA
AGGTGCCTTTTGTAATGGTCAAAAACTACAGGTTTCACAACAAGAAGATATTACCAAACCACTCTTGGTGACTGAATTGG
GCTCTTCCAGAACACCAGAGACTGTAAGAATTGTTCTTTCTAACATGGAAAAGTTTTTTTGCATTCCTGTTCATGGGATC
CGGAGTATTGGAACGGCAGCTGTTTGCCTTGTGGCAATTGGAGGAGCAGATGCATATTATGCAATGGGAATTCACTGCTG
GGCTCTTGCAGGAGTTAGCATTATTATTACTGAAGCTGATGGCATGCTAATGGATGTTACAGGTGGATCATTTGATTTGA
TGTCACTAAGAGTAATTGCTGCAAAT

Alignment

ORF - retro_mmul_467 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.65 %
• Parental protein coverage: 81.23 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  EMNVMLKSSPVDLVTATDQKVEKMLISSI-KEKYPSH-SFIGEESVAAG-EKSILTNNPTWIIDPIDGTT
          EMNV..K.SPVDLVTA.DQKVE.MLISSI.K.K.P...SFIGEESVAAG.EKS.LTNNPTWIIDPIDGTT
Retrocopy EMNVIPKGSPVDLVTAADQKVEEMLISSI<KRKVPIS<SFIGEESVAAG<EKSALTNNPTWIIDPIDGTT

Parental  NFVHRFPFVAVSIGFAVNKKIEFGVVYSCVEDKMYTARKGKGAFCNGQKLQVSQQEDITKSLLVTELGSS
          NFVHRFPFVAVSIGFAVNKKI.FGVVYS...DKMYT.RK.KGAFCNGQKLQVSQQEDITK.LLVTELGSS
Retrocopy NFVHRFPFVAVSIGFAVNKKI*FGVVYSYAGDKMYTSRKEKGAFCNGQKLQVSQQEDITKPLLVTELGSS

Parental  RTPETVRIVLSNMEKLFCIPVHGIRSVGTAAVNMCLVATGGADAYYEMGIHCWDVAGAGIIVTEAGGILM
          RTPETVRIVLSNMEK.FCIPVHGIRS.GTAAV..CLVA.GGADAYY.MGIHCW..AG..II.TEA.G.LM
Retrocopy RTPETVRIVLSNMEKFFCIPVHGIRSIGTAAV--CLVAIGGADAYYAMGIHCWALAGVSIIITEADGMLM

Parental  DVTGGPFDLMSRRVIAAN
          DVTGG.FDLMS.RVIAAN
Retrocopy DVTGGSFDLMSLRVIAAN

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	0.11 RPM	21.18 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	9.68 RPM
SRP007412_cerebellum	0.26 RPM	15.89 RPM
SRP007412_heart	0.00 RPM	9.42 RPM
SRP007412_kidney	0.47 RPM	5.87 RPM
SRP007412_liver	0.04 RPM	4.95 RPM
SRP007412_testis	0.15 RPM	22.01 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_467 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_467 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_467 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Equus caballus	ENSECAG00000023030	1 retrocopy	retro_ecab_438,
Macaca mulatta	ENSMMUG00000002628	1 retrocopy	retro_mmul_467 ,
Monodelphis domestica	ENSMODG00000006271	1 retrocopy	retro_mdom_1310,