RetrogeneDB ID: retro_mmul_44

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 19:20685000..20686776(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMMUG00000021362
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: ZNF91
• Ensembl ID: ENSMMUG00000003688
• Aliases: None
• Description: zinc finger protein 91 [Source:HGNC Symbol;Acc:13166]

Sequence

>retro_mmul_44
GTGAATGAGTGTAATGTGCACAAAGAAGGTTATAATGAACTAAACCTGTGTTTGACAACTACCCAGAGAAAAATACTTCA
ATGTGATAAATATGTGAAAGTCTTCCACAAATTTTTAAATTCAAATAGACATAACACAAAACATACTAGAAAGAAACCTT
TCAAATGTAAAAAATGTGGCAAATCATTTTGCCTGCTTTTACACCTACGTCAGCATAAAAGAATTCATATTAGAGAGAAT
TCTTACCAATGTGAAGAATGTGGCAAAGCGTTTATCTGGTTCTCAACCCTTACTAGACACAGGCGGGTTCATACTGGAAA
GAAATCCTACAAATACGAAGAATGTGGCAAAGCTTTTAACCAGGACTCAAACCTTTCTACACATAAGAGAATTCATACTG
GACAGAAATCCTACAAATGTGAAGAATGTGGCACAGCTTTCTACCAATTCTCACACCTTACTAGGCATAAGTTAATTCAT
ACTGGAGAGAAACCCTACAAATGTGAAGAATGTGGCAAAGCTTTTAACCGATCTTCAACCCTTACTAGACATAAGATAAT
TCATACTGGAGAAAAACCCTATAAATGTGAAGAATGTGGCAAAGCCTTTAGTGTTTTCTCAACCCTTACTAAACATAAGA
TAATTCACACTGAAGAGAAACCCCACAGATGTGAAGAATATGGCAAAGCTTATAAGGAGTCCTCACACCTTACTACACAT
AAAAGAATTAATACTGGAGAGAAACCATACAAATGTGAAGAATGTGGCAAAACCTTTAGTATATTCTCAATCCTTACTAA
ACATAAGATAATTCATACAGAAGAGAAACCCTACAAATGTGAAGAATGTGGCAAAGCTTTTAAACGATCTTCAACCCTTA
CTAACCATAAGATAATTCATACTGAAGAGAAACCCTACAAATGTGAAGAATGTGGTAAAGCTTTTAAACAATCTTCGACC
CTTACTATACATAAAATAATTCATACTGGAGAAAAACCCTACAAATGTGAAGAATGTGGCAAAGCTTTTAAGCGATCTTC
AACCCTTACTATACATAAAATAATTCATACTGGAGAAAAACCCTACAAATGTGAAGAATGTGGCAAAGCTTTTAATCGGT
CCTCACACCTTACTACACATAAGAGAATTCATACTGGACAGAAACCCTACAAATGTAAAGAATGTGGCAAATCCTTTAGT
GAATTCTCAACACTTACTAAACATAAGATAATTCATACTGAAGAGAAACCCTACAAATGTGAAGAATGTGGCAAAGCTTT
TAACCGATCTTCAATCCTTAGTATACATAAGAAAACTCATACTGGAGAAAAACCCTACAAATGTGAAGAATGTGGCAAAG
CTTTTAAGCAGTCCTCACACCTCGCTGGGCATAAGCATGTTCATGGTGGACAGAAACCCTACAAATGTGAATTATGTGGC
AAAGCCTTTAGTATATTCTCAACCCTTACTAAACATAAGATAATTCATACTGAAGAGAAACCCTACAAATGTGAAGAATG
TGGCAAAACTTTCTACCGATTCTCAAACCTTAATACGCATAAGATAATTCATACTGGAAAGAAACCCTGCAAATGTGAAG
AATGTGGCAAAGCTTTCAACCATTCCTCAAACCTTACTAAACATAAGCTAATTCATACTGGAGACAAACCCTACAAATGT
GAACAATGTGGCAAAGCTTTTAGGCGGTCTTCACATCTTAGTAGACATAAGATAATTCATATTGGAATTCATACTGAAGA
GATTCTACAAATGTGA

Alignment

ORF - retro_mmul_44 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.36 %
• Parental protein coverage: 74.17 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VDECKVHREGYSKLNQCFTTTRSKVFQCGKYLKVFHKFLNSNRHMIIHSGQKPYKCEQCGKAFIWLSTLT
          V.EC.VH.EGY..LN.C.TTT..K..QC.KY.KVFHKFLNSNRH...H...KP.KC..CGK.F..L..L.
Retrocopy VNECNVHKEGYNELNLCLTTTQRKILQCDKYVKVFHKFLNSNRHNTKHTRKKPFKCKKCGKSFCLLLHLR

Parental  GHKKIHTREKLYKCEECGKAFLWSSTLTRHKRIHTGEKPYKCEECGKAFRQSSTLTKHKRIHTGEKPYKC
          .HK.IH.RE..Y.CEECGKAF.W.STLTRH.R.HTG.K.YK.EECGKAF.Q.S.L..HKRIHTG.K.YKC
Retrocopy QHKRIHIRENSYQCEECGKAFIWFSTLTRHRRVHTGKKSYKYEECGKAFNQDSNLSTHKRIHTGQKSYKC

Parental  EECGKAFRQSLTLTKHKIIHSGEKHYKCKECGKTFKQFSTLTTHKIIHAGKKCYKCEECGKAFNQSSSLS
          EECG.AF.Q...LT.HK.IH.GEK.YKC.ECGK.F...STLT.HKIIH.G.K.YKCEECGKAF...S.L.
Retrocopy EECGTAFYQFSHLTRHKLIHTGEKPYKCEECGKAFNRSSTLTRHKIIHTGEKPYKCEECGKAFSVFSTLT

Parental  THKIIHTGEKSYKCEECGKAFIWSSTLTRHKRIHTGEKPCKCEECGKAFSHSSTLAKHKRIHTGEKPYKC
          .HKIIHT.EK...CEE.GKA...SS.LT.HKRI.TGEKP.KCEECGK.FS..S.L.KHK.IHT.EKPYKC
Retrocopy KHKIIHTEEKPHRCEEYGKAYKESSHLTTHKRINTGEKPYKCEECGKTFSIFSILTKHKIIHTEEKPYKC

Parental  KECGKAFSNSSTLTNHKITHTEEKPYKCKECGKAFKRLSTLTKHKIIHAGEKLYKCEECGKAFNRSSNLT
          .ECGKAF..SSTLTNHKI.HTEEKPYKC.ECGKAFK..STLT.HKIIH.GEK.YKCEECGKAF.RSS.LT
Retrocopy EECGKAFKRSSTLTNHKIIHTEEKPYKCEECGKAFKQSSTLTIHKIIHTGEKPYKCEECGKAFKRSSTLT

Parental  AHKIIHTGEKPYKCEECGKAFIWSSSLTKHKRIHTREKLFKCKECDKAFIWSSTLTRHKRIHTGEKPYKC
          .HKIIHTGEKPYKCEECGKAF..SS.LT.HKRIHT..K..KCKEC.K.F...STLT.HK.IHT.EKPYKC
Retrocopy IHKIIHTGEKPYKCEECGKAFNRSSHLTTHKRIHTGQKPYKCKECGKSFSEFSTLTKHKIIHTEEKPYKC

Parental  EECGKAFNHSSTLTKHKTIHTGEKPYKCKEECGKAFVWSSTLTEHKRIHTREKPYKCEECGKAFSQPSHL
          EECGKAFN.SS.L..HK..HTGEKPYKC.EECGKAF..SS.L..HK..H...KPYKCE.CGKAFS..S.L
Retrocopy EECGKAFNRSSILSIHKKTHTGEKPYKC-EECGKAFKQSSHLAGHKHVHGGQKPYKCELCGKAFSIFSTL

Parental  TTHKRMHTGEKPYKCEECGKAFSQSSTLTTHKIIHTGEKPYKCEECGKAFRKSSTLTEHKIIHTGEKPYK
          T.HK..HT.EKPYKCEECGK.F...S.L.THKIIHTG.KP.KCEECGKAF..SS.LT.HK.IHTG.KPYK
Retrocopy TKHKIIHTEEKPYKCEECGKTFYRFSNLNTHKIIHTGKKPCKCEECGKAFNHSSNLTKHKLIHTGDKPYK

Parental  CEECGKAFSQSSTLTRHKRMHTG
          CE.CGKAF..SS.L.RHK..H.G
Retrocopy CEQCGKAFRRSSHLSRHKIIHIG

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	18.82 RPM	2.24 RPM
SRP007412_brain_prefrontal_cortex	6.03 RPM	2.06 RPM
SRP007412_cerebellum	16.01 RPM	4.13 RPM
SRP007412_heart	1.71 RPM	1.12 RPM
SRP007412_kidney	6.22 RPM	2.70 RPM
SRP007412_liver	0.20 RPM	0.24 RPM
SRP007412_testis	4.49 RPM	2.56 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_44 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_44 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_44 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Equus caballus	ENSECAG00000023794	1 retrocopy	retro_ecab_61,
Macaca mulatta	ENSMMUG00000003688	1 retrocopy	retro_mmul_44 ,
Otolemur garnettii	ENSOGAG00000005643	1 retrocopy	retro_ogar_19,
Otolemur garnettii	ENSOGAG00000029638	2 retrocopies	retro_ogar_105, retro_ogar_193,
Pelodiscus sinensis	ENSPSIG00000004688	1 retrocopy	retro_psin_20,
Pelodiscus sinensis	ENSPSIG00000008115	1 retrocopy	retro_psin_11,