RetrogeneDB ID: retro_mmul_2591

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: X:66696990..66697500(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BMI1
• Ensembl ID: ENSMMUG00000000881
• Aliases: None
• Description: None

Sequence

>retro_mmul_2591
ATGCATTGAACAATCGAAGTCAAAATCACTGAGCTAAATCCCCACTTAATGTGTGTGCTTTGTGGAAGATACTTAATTGA
TGCCAGAACCATAATAGAATATCTACATTCCTTCTGTGAAACCTGTATTTTGTGTTACCTATAGATCAGCAGATATTGTC
CTGTAATGTCCAAGTTCACAAAACCATTTTGCTCCTGAATGTAACGTCAGATAAAAATCCTCAATCTATTGTATACAAAT
TTTTCCAGGCCTTTTCAAAAATAAAATAAGAAGGGATCTTTATGCATCTCTTTCTTCAGCTGTTGCTGCCAATGGCTCTA
ATGAAAATAGAGAAGTTGCAGATGAAGATAAGAGAATTATAACTGATGATGAAACAATAAGCTTATCCATTGGATTTTTT
TTTTTTTACCAGAAGAGGAAGTAAACAAAGACAAAGAGAAGTTTAAGGAGGAGGTGAATGACAAAAGTTGTTTACAATGC
CCAGCCAGAATGACTGTGATGAACCTAAGG

Alignment

ORF - retro_mmul_2591 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.24 %
• Parental protein coverage: 53.99 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MHRTTRIKITELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPI-CDVQVHKTRPLLNI
          MH.T...KITELNPHLMCVLCG.Y.IDA.TIIE.LHSFC.TCI..YL..S.YCP..C........P..N.
Retrocopy MH*TIEVKITELNPHLMCVLCGRYLIDARTIIEYLHSFCETCILCYL*ISRYCPV>CPSSQNHFAPECNV

Parental  RSDKTLQDIVYKLVPGLFKNEMKRRRDFYAAHPSADAANGSNEDRGEVADEDKRIITDDEIISLSIEFFD
          R.......I.....PGLFKN..K.RRD.YA...SA.AANGSNE.R.EVADEDKRIITDDE.ISLSI....
Retrocopy R*KSSIYCI--QIFPGLFKN--KIRRDLYASLSSAVAANGSNENR-EVADEDKRIITDDETISLSIGXXX

Parental  QNRLDRKVNKDK-EKSKEEVNDKRYLRCPAAMTVMHLR
          .....RK..K.K.EK.KEEVNDK..L.CPA.MTVM.LR
Retrocopy XXQ-KRK*TKTK<EKFKEEVNDKSCLQCPARMTVMNLR

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	31.37 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	19.67 RPM
SRP007412_cerebellum	0.00 RPM	41.39 RPM
SRP007412_heart	0.00 RPM	14.90 RPM
SRP007412_kidney	0.00 RPM	13.26 RPM
SRP007412_liver	0.00 RPM	7.28 RPM
SRP007412_testis	0.00 RPM	55.26 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_2591 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_2591 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_2591 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 10 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000011962	1 retrocopy	retro_chof_709,
Callithrix jacchus	ENSCJAG00000036548	1 retrocopy	retro_cjac_2437,
Cavia porcellus	ENSCPOG00000015427	2 retrocopies	retro_cpor_1209, retro_cpor_546,
Gorilla gorilla	ENSGGOG00000025243	1 retrocopy	retro_ggor_3025,
Loxodonta africana	ENSLAFG00000016845	1 retrocopy	retro_lafr_591,
Macaca mulatta	ENSMMUG00000000881	1 retrocopy	retro_mmul_2591 ,
Macaca mulatta	ENSMMUG00000012624	1 retrocopy	retro_mmul_2182,
Mus musculus	ENSMUSG00000026739	1 retrocopy	retro_mmus_3710,
Oryctolagus cuniculus	ENSOCUG00000005420	1 retrocopy	retro_ocun_489,
Tupaia belangeri	ENSTBEG00000015631	1 retrocopy	retro_tbel_2369,