RetrogeneDB ID: retro_mmul_181

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 12:10542664..10543285(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMMUG00000006925
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: ICT1
• Ensembl ID: ENSMMUG00000011644
• Aliases: None
• Description: None

Sequence

>retro_mmul_181
ATGGCGGCCACCGGGTGCCTGCGCTGGAGCCTGAACCGAGCCGGAGTCTGGCTGCTCCCACCGCCCACATGGTGCCCACG
CCGGGTGCTGCACAAGCAGAAAGATGGCACTGAGTTCAAGAGCATCTACAGCCTGGACAAGCTCTACCCCGAATCTCAGG
GCTCGGACACCGCTTGGAGGGTCCCGGATGGTGCAAAGCAAGCCGACAGTGACATCCCTCTAAATCGCTTGACAATATCT
TATTGTCGGAGTAGTGGTCCTGGGGGGCAGAATGTGAACAAAGTGAATTCCAAGGCGGAAGTCAGGTTCCATTTGGCAAC
TGCCGACTGGATCGCAGAGCCTGTGCGGCAGAAGATAGCCATCATGCATAAAAACAAGATCAACAGGTTAGGAGAGTTGA
TCCTCACCTCTGAGAGCAGCCGCTATCAGTTCCGGAATCTGGCAGACTGCCTGCAGAAAATTCGAGACATGATCGCTGAG
GCCAGCGAGACACCCAAGGAGCCAACAAAAGAAGATGTTAAACTTCAGAGAATCAGGATAGAAAACATGAATCAGGAAAG
GCTGAGACAAAAGAGAATTCATTCTGCTGTAAAGACAAGCAGGAGAGTTGACATGGACTGA

Alignment

ORF - retro_mmul_181 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.06 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAATGCLRWSLNRAGVWLLPPPTRCPRRALHKQKDGTEFKSIYSLDKLYPEFQGSDTAWRVPDGAKQADS
          MAATGCLRWSLNRAGVWLLPPPT.CPRR.LHKQKDGTEFKSIYSLDKLYPE.QGSDTAWRVPDGAKQADS
Retrocopy MAATGCLRWSLNRAGVWLLPPPTWCPRRVLHKQKDGTEFKSIYSLDKLYPESQGSDTAWRVPDGAKQADS

Parental  DIPLNRLTISYCRSSGPGGQNVNKVNSKAEVRFHLATADWIAEPVRQKIAIMHKNKINRLGELILTSESS
          DIPLNRLTISYCRSSGPGGQNVNKVNSKAEVRFHLATADWIAEPVRQKIAIMHKNKINRLGELILTSESS
Retrocopy DIPLNRLTISYCRSSGPGGQNVNKVNSKAEVRFHLATADWIAEPVRQKIAIMHKNKINRLGELILTSESS

Parental  RYQFRNLADCLQKIRDMIAEASETPKEPTKEDVKLQRIRIENMNRERLRQKRIHSAVKTSRRVDMD
          RYQFRNLADCLQKIRDMIAEASETPKEPTKEDVKLQRIRIENMN.ERLRQKRIHSAVKTSRRVDMD
Retrocopy RYQFRNLADCLQKIRDMIAEASETPKEPTKEDVKLQRIRIENMNQERLRQKRIHSAVKTSRRVDMD

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	0.78 RPM	6.27 RPM
SRP007412_brain_prefrontal_cortex	0.95 RPM	11.34 RPM
SRP007412_cerebellum	0.39 RPM	7.04 RPM
SRP007412_heart	0.18 RPM	4.36 RPM
SRP007412_kidney	0.94 RPM	5.75 RPM
SRP007412_liver	0.44 RPM	6.18 RPM
SRP007412_testis	0.41 RPM	7.58 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_181 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_181 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_181 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
Dipodomys ordii	ENSDORG00000006439	1 retrocopy	retro_dord_539,
Macaca mulatta	ENSMMUG00000011644	1 retrocopy	retro_mmul_181 ,
Monodelphis domestica	ENSMODG00000007126	1 retrocopy	retro_mdom_1152,