RetrogeneDB ID: retro_mmul_1615

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 3:77564809..77566108(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMMUG00000008002
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: CDC14B
• Ensembl ID: ENSMMUG00000005997
• Aliases: None
• Description: None

Sequence

>retro_mmul_1615
ATCACCGATCGCCTTCGTTTTGCCATTCTCAACAGCAGACCAAAGAGTGCATCAAATGTACATTATTTCAGCGTAGATAA
TGAACTCGAATATGAGAACTTCTCCGAAGACTTTGGACCACTCAATCTGGCAATGGTTTACAGATATTGTTGCAAGATAA
ATAAGAAATTAAAGTCCATTACAATGTTAAGGAAGAAAATTGTTCATTTTACTGGCTCTGATCAGAGAAAACAAGCCAAT
GCTGCCTTCCTTGTTGGATGCTACATGGTTATATATTTGGGGAGAACTCCAGAAGAAGCATATAGAATATTAATCTTTGG
AGATACATCCTATATTCCTTTCAGAGATGCTGCCTATGGAAGCTGCAATTTCTACATTACACTTCTTGACTGTTTTCATG
CAGTAAAGAAGGCAATGCAGTATGGCTTCCTTAATTTCAACTCATTTAACCTTGATGAATATGAACACTATGAAAAAGCA
GAAAACGGAGACTTAAATTGGATAATACCAGACCGATTTATTGCCTTCTGTGGACCTCATTCAAGAACCAGACTTGAAAG
TGGTTACCCTCAACATTCTCCTGAGACTTATATTCAATATTTTAAGAATCACAATGTTACTACCATTATTCGTCTTAATA
AAAGGATGTATGATGCCAAACGCTTTATGGATGCTGGCTTCGATCACCACGATCTTTTCTTTGCGGATGGCAGCACCCCT
ACTGATGCCATTGTCAAAAAATTTCTGGATATCTGTGAAAATGCTGAGGGTGCCATTGCAGTACATTGTAAAGCTGGCCT
TGGTCGCACAGGCACTTTGATAGCCTGCTACATCATGAAGCATTTCAGGATGACAGCAGCTGAGACCATTGCATGGGTAA
GGATCTGCAGACCTGGCTTGGTGATTGGGCCTCAGCAGCAGTTTTTGGTGATGAAGCAAACAAGCCTCTGGCTGGAAGGG
GACTATTTTCGGCAGAAGTTAAAGGGGCAGGAGAATGGACAACACAGAGCAGCCTTCTCCAAACTTCTCTCTGGTGTTGA
TGACATTTCCATAAATGGGGTCGAGAATCAAGACCAGCAAGAACCCGAACCTTACAGTGATGACGACAACATCAATGGAG
GGACACAAGGTGATAGACTTCGGGCCCTGAAAAGCAGAAGACAACCGAAAACAAACGCTATTCCTCTGACATGTCCCCTA
GCTGTGCTGACCTCTGCACTATGTAGTATTGTCATCTGGTGGATTGTTTGTGACTACATTCTTCCCATCCTGCTATTCTG
TCTCGATGGTTTCAGAACA

Alignment

ORF - retro_mmul_1615 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.61 %
• Parental protein coverage: 99.77 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ISDRLCFAILYSRPKSASNVHYFSIDNELEYENFYADFGPLNLAMVYRYCCKINKKLKSITMLRKKIVHF
          I.DRL.FAIL.SRPKSASNVHYFS.DNELEYENF..DFGPLNLAMVYRYCCKINKKLKSITMLRKKIVHF
Retrocopy ITDRLRFAILNSRPKSASNVHYFSVDNELEYENFSEDFGPLNLAMVYRYCCKINKKLKSITMLRKKIVHF

Parental  TGSDQRKQANAAFLVGCYMVIYLGRTPEEAYRILIFGETSYIPFRDAAYGSCNFYITLLDCFHAVKKAMQ
          TGSDQRKQANAAFLVGCYMVIYLGRTPEEAYRILIFG.TSYIPFRDAAYGSCNFYITLLDCFHAVKKAMQ
Retrocopy TGSDQRKQANAAFLVGCYMVIYLGRTPEEAYRILIFGDTSYIPFRDAAYGSCNFYITLLDCFHAVKKAMQ

Parental  YGFLNFNSFNLDEYEHYEKAENGDLNWIIPDRFIAFCGPHSRARLESGYHQHSPETYIQYFKNHSVTTII
          YGFLNFNSFNLDEYEHYEKAENGDLNWIIPDRFIAFCGPHSR.RLESGY.QHSPETYIQYFKNH.VTTII
Retrocopy YGFLNFNSFNLDEYEHYEKAENGDLNWIIPDRFIAFCGPHSRTRLESGYPQHSPETYIQYFKNHNVTTII

Parental  RLNKRMYDAKRFTDAGFDHHDLFFADGSTPTDAIVKEFLDICENAEGAIAVHCKAGLGRTGTLIACYIMK
          RLNKRMYDAKRF.DAGFDHHDLFFADGSTPTDAIVK.FLDICENAEGAIAVHCKAGLGRTGTLIACYIMK
Retrocopy RLNKRMYDAKRFMDAGFDHHDLFFADGSTPTDAIVKKFLDICENAEGAIAVHCKAGLGRTGTLIACYIMK

Parental  HYRMTAAETIAWVRICRPGSVIGPQQQFLVMKQTSLWLEGDYFRRKLKGQENGQHRAAFSKLLSGVDDIS
          H.RMTAAETIAWVRICRPG.VIGPQQQFLVMKQTSLWLEGDYFR.KLKGQENGQHRAAFSKLLSGVDDIS
Retrocopy HFRMTAAETIAWVRICRPGLVIGPQQQFLVMKQTSLWLEGDYFRQKLKGQENGQHRAAFSKLLSGVDDIS

Parental  INGVENQDQQEPEPYSDDDEINGVTQGDRLRALKSRRQSKTNAIPLTCPLAVLTSALCSVVIWWIVCDYI
          INGVENQDQQEPEPYSDDD.ING.TQGDRLRALKSRRQ.KTNAIPLTCPLAVLTSALCS.VIWWIVCDYI
Retrocopy INGVENQDQQEPEPYSDDDNINGGTQGDRLRALKSRRQPKTNAIPLTCPLAVLTSALCSIVIWWIVCDYI

Parental  LPILLFCLDGFRT
          LPILLFCLDGFRT
Retrocopy LPILLFCLDGFRT

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	4.71 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	4.68 RPM
SRP007412_cerebellum	0.00 RPM	4.20 RPM
SRP007412_heart	0.00 RPM	7.24 RPM
SRP007412_kidney	0.00 RPM	20.77 RPM
SRP007412_liver	0.00 RPM	13.18 RPM
SRP007412_testis	26.57 RPM	11.46 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_1615 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_1615 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_1615 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 7 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000081377	2 retrocopies	retro_hsap_3729, retro_hsap_3845,
Macaca mulatta	ENSMMUG00000005997	1 retrocopy	retro_mmul_1615 ,
Nomascus leucogenys	ENSNLEG00000016822	1 retrocopy	retro_nleu_1981,
Pongo abelii	ENSPPYG00000019417	1 retrocopy	retro_pabe_208,
Pan troglodytes	ENSPTRG00000021155	2 retrocopies	retro_ptro_2524, retro_ptro_2621,
Ictidomys tridecemlineatus	ENSSTOG00000012205	1 retrocopy	retro_itri_1799,
Ictidomys tridecemlineatus	ENSSTOG00000028527	3 retrocopies	retro_itri_1798, retro_itri_1821, retro_itri_1890,