RetrogeneDB ID: retro_mmul_367

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 1:35183623..35184004(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GOSR2
• Ensembl ID: ENSMMUG00000018689
• Aliases: None
• Description: Golgi SNAP receptor complex member 2 [Source:RefSeq peptide;Acc:NP_001244707]

Sequence

>retro_mmul_367
ATGGAGCCCCTGTACCAGTAAACCCACAAGCAGGTCCATTAGATCCAGTCTCACATGGGACGCCTGGAGATGGCAGACAA
GCAGTTTGCACACTTAGTAGAAAACAAAATCCAAGCAAGCACAGACCAGATATTCAGCCGTCTAGAACATCTGGAGATTT
TGTCCAGCAAGGAGCCCCCTAACAAAAGGCAGAATGCTAAACTTCGGGTTGACCAGTTAAAGTATGATGTTCAGCACCTG
CAGACTGCTCTCAGAAACTTCCAGCATCAACACTATACAAGGGAGCAGCAGGAGAGACAGCAAGAAGAGCTTCTCAAACC
TTCACCACTAACAATTCTCAATCGCAATCCTCTGATAACTGTTGAAGATTCGTATCTGTTT

Alignment

ORF - retro_mmul_367 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.23 %
• Parental protein coverage: 58.88 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MEPLYQQTHKQVHEIQSRMGRLETADKQSVQIVENEIQASIDQIFSRLERLEILSSKEPPNKRQNAKLRV
          MEPLYQ.THKQVH.IQS.MGRLE.ADKQ....VEN.IQAS.DQIFSRLE.LEILSSKEPPNKRQNAKLRV
Retrocopy MEPLYQ*THKQVH*IQSHMGRLEMADKQFAHLVENKIQASTDQIFSRLEHLEILSSKEPPNKRQNAKLRV

Parental  DQLKYDVQHLQTALRNFQHRRHAREQQERQREELLSRT-FTTNDSDTTIPMDESLQF
          DQLKYDVQHLQTALRNFQH....REQQERQ.EELL.....T.......I....S..F
Retrocopy DQLKYDVQHLQTALRNFQHQHYTREQQERQQEELLKPSPLTILNRNPLITVEDSYLF

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	15.24 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	25.07 RPM
SRP007412_cerebellum	0.00 RPM	15.89 RPM
SRP007412_heart	0.00 RPM	17.78 RPM
SRP007412_kidney	0.00 RPM	36.38 RPM
SRP007412_liver	0.00 RPM	24.62 RPM
SRP007412_testis	0.26 RPM	31.40 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_367 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_367 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_367 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000013419	1 retrocopy	retro_cfam_1351,
Callithrix jacchus	ENSCJAG00000020030	1 retrocopy	retro_cjac_3180,
Felis catus	ENSFCAG00000028951	1 retrocopy	retro_fcat_678,
Myotis lucifugus	ENSMLUG00000002709	1 retrocopy	retro_mluc_752,
Macaca mulatta	ENSMMUG00000018689	1 retrocopy	retro_mmul_367 ,
Nomascus leucogenys	ENSNLEG00000004922	1 retrocopy	retro_nleu_1211,
Ictidomys tridecemlineatus	ENSSTOG00000016069	2 retrocopies	retro_itri_1790, retro_itri_270,