RetrogeneDB ID: retro_mmul_867

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 11:52213969..52214772(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: HSF2
• Ensembl ID: ENSMMUG00000007910
• Aliases: None
• Description: None

Sequence

>retro_mmul_867
ATGAAGCAGAGTTCGAACGTGCCGGCTTTCCTCAGCAAGATGTGGACGCTTGTGGAGGAAACCCACACTAACGAGATCAT
CACCTGGAAGCAGAATGGCCAAAGTTTTCTGGTCTTGGATGAGCAATGATTTGCAAAGGAAATTCTTCCCAAATATTTCA
AGCACAATAACATGGCAAACTTTGTGAGGCAACTGAATATGTATGGTTTCCGTAAAGCAGTACATATTGACTCTGGAATT
GTAAAGCAGGAAAGAGATGGTCCTGTAGAATTTCAGCATCCTTATTTCAAACAAGGACAGGATGACTTGTTGGAGAACAT
TAAAAGGAAGGTTTCATCTTCAAAACCAGAAGAAAATAAAAATTCGTCAGGAAAATTTTTTTAAAAAATTATAAGTAGTG
CTCAGAAGGTTCAAATAAAACAGGAAACTGTTGAGTACAGGCTTTCTGAATTAAAAAGTGAGAATGAGTCCCTTTGAAAG
GAGGTGTCAGAATCACAAGCAAAGCATGCACAACAGCAACAAGTTATTCGAAAGATTGTCCAGTTTATTGTTACACAGGT
TCAAAATAACCAACTTGTGAGTTTAAAACATAAAAGGCCTCTACTTTAAACACTAATGGAGCCCAAAAGAAGAATCTGTT
TCAGCACATAGTCAAAGAACCAACTGATAATTACCATCATAAAGTTCCACACAGTAGGACTGAAGTTTTAAAGCCAAGGG
AGATGATTTCAGATGACATCATTATTTACAATGTTACTGATGATAATGCAAATGAAGAAGGTATCCCAGTTATTCCAGAA
ACT

Alignment

ORF - retro_mmul_867 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.99 %
• Parental protein coverage: 53.51 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MKQSSNVPAFLSKLWTLVEETHTNEFITWSQNGQSFLVLDEQRFAKEILPKYFKHNNMASFVRQLNMYGF
          MKQSSNVPAFLSK.WTLVEETHTNE.ITW.QNGQSFLVLDEQ.FAKEILPKYFKHNNMA.FVRQLNMYGF
Retrocopy MKQSSNVPAFLSKMWTLVEETHTNEIITWKQNGQSFLVLDEQ*FAKEILPKYFKHNNMANFVRQLNMYGF

Parental  RKVVHIDSGIVKQERDGPVEFQHPYFKQGQDDLLENIKRKVSSSKP-EENKIRQEDLTKIISSAQKVQIK
          RK.VHIDSGIVKQERDGPVEFQHPYFKQGQDDLLENIKRKVSSSKP.E..............SAQKVQIK
Retrocopy RKAVHIDSGIVKQERDGPVEFQHPYFKQGQDDLLENIKRKVSSSKPEENKNSSXXXXXXXXXSAQKVQIK

Parental  QETIESRLSELKSENESLWKEVSELRAKHAQQQQVIRKIVQFIVTLVQNNQLVSLKRKRPLL-LNTNGAQ
          QET.E.RLSELKSENESL.KEVSE..AKHAQQQQVIRKIVQFIVT.VQNNQLVSLK.KRPLL.LNTNGAQ
Retrocopy QETVEYRLSELKSENESL*KEVSESQAKHAQQQQVIRKIVQFIVTQVQNNQLVSLKHKRPLL<LNTNGAQ

Parental  KKNLFQHIVKEPTDNHHHKVPHSRTEGLKPRERISDDIIIYDVTDDNADEENIPVIPET
          KKNLFQHIVKEPTDN.HHKVPHSRTE.LKPRE.ISDDIIIY.VTDDNA.EE.IPVIPET
Retrocopy KKNLFQHIVKEPTDNYHHKVPHSRTEVLKPREMISDDIIIYNVTDDNANEEGIPVIPET

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	20.84 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	12.85 RPM
SRP007412_cerebellum	0.00 RPM	26.54 RPM
SRP007412_heart	0.00 RPM	8.01 RPM
SRP007412_kidney	0.00 RPM	5.16 RPM
SRP007412_liver	0.00 RPM	1.82 RPM
SRP007412_testis	0.57 RPM	34.49 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_867 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_867 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_867 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000010951	1 retrocopy	retro_chof_621,
Cavia porcellus	ENSCPOG00000007509	1 retrocopy	retro_cpor_1341,
Macaca mulatta	ENSMMUG00000007910	1 retrocopy	retro_mmul_867 ,
Tupaia belangeri	ENSTBEG00000013569	3 retrocopies	retro_tbel_1029, retro_tbel_19, retro_tbel_3,