RetrogeneDB ID: retro_mmul_244

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 18:32580123..32580768(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMMUG00000023561
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMMUG00000017377
• Aliases: None
• Description: None

Sequence

>retro_mmul_244
ATGGACGGACTTCTTCTGGATACTGAACGACTGTATTCAGTGGTGTTTCAAGAAATATGTGATCGCTATGACAAGAAATA
CAGCTGGGATGTAAAGTCCCTGGTTATGGGTAAGAAGGCATTAGAGGCGGCACAGATTATAATAGACGTCTTGCAGCTCC
CGATGTCCAAAGAGGAGCTGGTGGAAGAAAGCCAAACGAAGTTAAAGGAAATGTTCCCCACGGCTGCGCTCATGCCAGGG
GCTGAGAAACTCATCGTCCACCTGCGGAAACACGGCATCCCCTTTGCGCTGGCCACCAGCTCAGGGTCCGTGTCGTTCGA
GATGAAGACGAGCCGCCACAAGGAATTCTTCAGCTTGTTTTCCCACATTGTGCTGGGAGATGACCCTGAAGTGCAGCATG
GCAAGCCAGACCCCGACATCTTCCTAGCTTGTGCCAAGAGATTCTCTCCCCCTCCTGCTATGGAGAAGTGCCTTGTCTTT
GAAGATGCTCCCAATGGGGTGGAGGCGGCCCTGGCAGCTGGGATGCAGGTGGTCATGGTTCCTGACGGAAACTTGAGCCG
AGACCTGACGACAAAGGCCACCCTGGTGCTGAATTCCCTGCAGGACTTCCAGCCCGAGCTGTTTGGTTTGCCCCCATATG
AGTGA

Alignment

ORF - retro_mmul_244 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 99.05 %
• Parental protein coverage: 98.14 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LIADTERLYSVVFQEICDRYDKKYSWDVKSLVMGKKALEAAQIIIDVLQLPMSKEELVEESQTKLKEMFP
          L..DTERLYSVVFQEICDRYDKKYSWDVKSLVMGKKALEAAQIIIDVLQLPMSKEELVEESQTKLKEMFP
Retrocopy LLLDTERLYSVVFQEICDRYDKKYSWDVKSLVMGKKALEAAQIIIDVLQLPMSKEELVEESQTKLKEMFP

Parental  TAALMPGAEKLIVHLRKHGIPFALATSSGSVSFEMKTSRHKEFFSLFSHIVLGDDPEVQHGKPDPDIFLA
          TAALMPGAEKLIVHLRKHGIPFALATSSGSVSFEMKTSRHKEFFSLFSHIVLGDDPEVQHGKPDPDIFLA
Retrocopy TAALMPGAEKLIVHLRKHGIPFALATSSGSVSFEMKTSRHKEFFSLFSHIVLGDDPEVQHGKPDPDIFLA

Parental  CAKRFSPPPAMEKCLVFEDAPNGVEAALAAGMQVVMVPDGNLSRDLTTKATLVLNSLQDFQPELFGLPPY
          CAKRFSPPPAMEKCLVFEDAPNGVEAALAAGMQVVMVPDGNLSRDLTTKATLVLNSLQDFQPELFGLPPY
Retrocopy CAKRFSPPPAMEKCLVFEDAPNGVEAALAAGMQVVMVPDGNLSRDLTTKATLVLNSLQDFQPELFGLPPY

Parental  E
          E
Retrocopy E

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	0.22 RPM	0.00 RPM
SRP007412_brain_prefrontal_cortex	0.71 RPM	0.71 RPM
SRP007412_cerebellum	0.32 RPM	0.00 RPM
SRP007412_heart	0.29 RPM	0.00 RPM
SRP007412_kidney	0.00 RPM	0.00 RPM
SRP007412_liver	0.20 RPM	0.04 RPM
SRP007412_testis	0.15 RPM	0.04 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_244 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_244 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_244 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 10 parental genes, and 20 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000004616	1 retrocopy	retro_acar_48,
Choloepus hoffmanni	ENSCHOG00000001318	5 retrocopies	retro_chof_1597, retro_chof_1855, retro_chof_1883, retro_chof_2136, retro_chof_2168,
Homo sapiens	ENSG00000130021	2 retrocopies	retro_hsap_2469, retro_hsap_454,
Gorilla gorilla	ENSGGOG00000004425	1 retrocopy	retro_ggor_1537,
Microcebus murinus	ENSMICG00000017082	1 retrocopy	retro_mmur_1321,
Macaca mulatta	ENSMMUG00000017377	1 retrocopy	retro_mmul_244 ,
Monodelphis domestica	ENSMODG00000017505	2 retrocopies	retro_mdom_1374, retro_mdom_52,
Pongo abelii	ENSPPYG00000020105	2 retrocopies	retro_pabe_1837, retro_pabe_280,
Pteropus vampyrus	ENSPVAG00000011149	1 retrocopy	retro_pvam_1165,
Tarsius syrichta	ENSTSYG00000013238	4 retrocopies	retro_tsyr_2013, retro_tsyr_345, retro_tsyr_542, retro_tsyr_931,