RetrogeneDB ID: retro_nleu_751

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397272.1:30280255..30281492(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: HSPA5
• Ensembl ID: ENSNLEG00000017348
• Aliases: None
• Description: None

Sequence

>retro_nleu_751
GTCTTCGGAGTTGTGGCCACTAATGGAGATACTCATCTGGGTGGAGAAAACTTTGACCAGTGTGTCATGGAACTTTTCAT
CAAGTTGTACAAAAAGAGGACTGACAAAGATGTCAGGAAAGACAATAGGGCTGTGCAGAAACTCCAGCAAGAGGTAGAAA
AGGCCAGATGGGCCCTGTCTCCTCAACATCAAGCAAGAATTGAAATTGAGTCCTTCTATGAAGGAGAAGACTTTTCTGAG
ACCCTGGCTCGGGCCAAATTTTAAGAGCTAAACATGGATCTGTTCTGCTCTACTCTGAAGCCCATCCATTAAGTGTTGGA
AAATTCTGATTTGAAGAAGTCTAATATTGATGAAGTTGTTCTTGGTGGCTCTACTCGAATTCCAAAGATTCAGCAACTGG
TTAAAAAGTCCTTCAATGGCAAGGAGCCCTCCCATAGCATAAACACAGATGAAGCTGTAGTGTATGGTGCTGCTGTCCAG
GCTGGAGTGCTCTCTGGTGATCAAGATACAGGTGACCTGGTACTGCTTGATGTATGTCCCCTTATACTTGGTATTGAAAC
TGTGAGAGGTGTCATGATCAAACTGATTCCAAGGAACACAGTGGTGCCTACCAAGACGTCTCAGATCTTTTGTACAGCTT
CTGATAATCAACCAACTGTCATGATCAAGGTCTATGAGGATGAATGACCCCTGACAAAAGACATTCATCTTCTGGGTACA
ATTGATCTGACTGGAATTCCTCCTGCTCCTCGTGGGGTCCCACAGATTGAAGTCACCTTTGAGATAGATGTGAATGGTAT
TCTTTGAGTGGCAGCTGAAGACAAGGGTACAGGGAACAAAAATAAGATCACAATTACCAATGACCAGAATCGCCTGACAC
CTGAAGAAATCAAAAGGATGGTTAATGATGCTGAGAAGTTTGCTGGGGAAGACACCAACTCAAGGAGTGCATTGATACTA
GAAATGAGTTGGAAAGCTTTGCCTATTCTCTAAAGAATCAGATTGGAGATAAAGAAAAGCTGGGAGGTAAACTTTCCTCT
GAAGATAAGGAGACCATGGAAGAAGCTGTAGAAGAAAAGATTGAATGGCTGGAAAGCCACCAAGCTTCTGACATTGAAGA
CGTCAAAGCTAAGAAGAAGTAACTGGAAGAAATTGTTCAGTCAATTATCAGCAAACTCTATGGAAGTGCAGGCCCTCCCC
CAGCAGCGAAGAGGATACAGCAGAAAAAGATGAGCTG

Alignment

ORF - retro_nleu_751 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.3 %
• Parental protein coverage: 63.3 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  VFEVVATNGDTHLGGEDFDQRVMEHFIKLYKKKTGKDVRKDNRAVQKLRREVEKAKRALSSQHQARIEIE
          VF.VVATNGDTHLGGE.FDQ.VME.FIKLYKK.T.KDVRKDNRAVQKL..EVEKA..ALS.QHQARIEIE
Retrocopy VFGVVATNGDTHLGGENFDQCVMELFIKLYKKRTDKDVRKDNRAVQKLQQEVEKARWALSPQHQARIEIE

Parental  SFYEGEDFSETLTRAKFEELNMDLFRSTMKPVQKVLEDSDLKKSDIDEIVLVGGSTRIPKIQQLVKEFFN
          SFYEGEDFSETL.RAKF.ELNMDLF.ST.KP...VLE.SDLKKS.IDE.VL.GGSTRIPKIQQLVK..FN
Retrocopy SFYEGEDFSETLARAKF*ELNMDLFCSTLKPIH*VLENSDLKKSNIDEVVL-GGSTRIPKIQQLVKKSFN

Parental  GKEPSRGINPDEAVAYGAAVQAGVLSGDQDTGDLVLLDVCPLTLGIETVGGVMTKLIPRNTVVPTKKSQI
          GKEPS..IN.DEAV.YGAAVQAGVLSGDQDTGDLVLLDVCPL.LGIETV.GVM.KLIPRNTVVPTK.SQI
Retrocopy GKEPSHSINTDEAVVYGAAVQAGVLSGDQDTGDLVLLDVCPLILGIETVRGVMIKLIPRNTVVPTKTSQI

Parental  FSTASDNQPTVTIKVYEGERPLTKDNHLLGTFDLTGIPPAPRGVPQIEVTFEIDVNGILRVTAEDKGTGN
          F.TASDNQPTV.IKVYE.E.PLTKD.HLLGT.DLTGIPPAPRGVPQIEVTFEIDVNGIL.V.AEDKGTGN
Retrocopy FCTASDNQPTVMIKVYEDE*PLTKDIHLLGTIDLTGIPPAPRGVPQIEVTFEIDVNGIL*VAAEDKGTGN

Parental  KNKITITNDQNRLTPEEIERMVNDAEKFAEED-KKLKERIDSRNELESYAYSLKNQIGDKEKLGGKLSSE
          KNKITITNDQNRLTPEEI.RMVNDAEKFA.ED...LKE.ID.RNELES.AYSLKNQIGDKEKLGGKLSSE
Retrocopy KNKITITNDQNRLTPEEIKRMVNDAEKFAGED<HQLKECIDTRNELESFAYSLKNQIGDKEKLGGKLSSE

Parental  DKETMEKAVEEKIEWLESHQDADIEDFKAKKKELEEIVQPIISKLYGSAGPP-PTGEEDTAEKDEL
          DKETME.AVEEKIEWLESHQ..DIED.KAKKK.LEEIVQ.IISKLYGSAGPP.P..EEDTAEKDEL
Retrocopy DKETMEEAVEEKIEWLESHQASDIEDVKAKKK*LEEIVQSIISKLYGSAGPP<PSSEEDTAEKDEL

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Nomascus leucogenys was not studied using RNA-Seq expression data.

ChIP-Seq

Nomascus leucogenys was not studied using ChIP-Seq data.

EST

Nomascus leucogenys was not studied using EST data.

TSS

Nomascus leucogenys was not studied using FANTOM5 data.

Lab

retro_nleu_751 was not experimentally validated.

Homology

Retrocopy orthology:

Nomascus leucogenys does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 12 parental genes, and 22 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000006880	1 retrocopy	retro_cjac_2221,
Homo sapiens	ENSG00000044574	1 retrocopy	retro_hsap_3005,
Gallus gallus	ENSGALG00000001000	1 retrocopy	retro_ggal_21,
Gorilla gorilla	ENSGGOG00000026879	1 retrocopy	retro_ggor_2082,
Macropus eugenii	ENSMEUG00000016702	1 retrocopy	retro_meug_522,
Mus musculus	ENSMUSG00000026864	1 retrocopy	retro_mmus_1299,
Nomascus leucogenys	ENSNLEG00000007419	8 retrocopies	retro_nleu_119, retro_nleu_1258, retro_nleu_1261, retro_nleu_1582, retro_nleu_175, retro_nleu_1781, retro_nleu_370, retro_nleu_64,
Nomascus leucogenys	ENSNLEG00000017348	1 retrocopy	retro_nleu_751 ,
Otolemur garnettii	ENSOGAG00000006786	1 retrocopy	retro_ogar_2901,
Pongo abelii	ENSPPYG00000019609	1 retrocopy	retro_pabe_2491,
Pan troglodytes	ENSPTRG00000000563	1 retrocopy	retro_ptro_2033,
Ictidomys tridecemlineatus	ENSSTOG00000011243	4 retrocopies	retro_itri_1686, retro_itri_1687, retro_itri_1689, retro_itri_1879,