RetrogeneDB ID: retro_nleu_993

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397278.1:24205210..24206556(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: HSP90B1
• Ensembl ID: ENSNLEG00000006510
• Aliases: None
• Description: None

Sequence

>retro_nleu_993
GAAGATGAATACAAAGCTTTTTACAAATCATCTTCAAAGGAAAGTGATGACCCCATGGCTTATATTCACTTTACTGCTGA
AGGGGAAGTTACCTTCAAATCAATTTTATTTGTACCCACATCTGATCCATGTGGTCTATTTGATGCATATGGATCTAAAA
AGAGTGATTACATTAAGCTCTATGTGCTCTGTGTATTCATCACAGACGACTTCCATGATATGATGCCTAAGTACCTTAAT
TTTGTCAAGGGTGTGGTGGACTCAGATGATCTCCCCTTGAATGTTTCCCTTGAGACTCTTCAGCAACATAAACTGCTTAA
GGATATTAGGAAGAAGCTTGTTTGTAAAACTCTGGACATGATCAAGAAGACTGCTGATGAGAAATACAATGATACTTTTT
GGAAAGAATTTGGTACCAACATCAAGCTTGGTATGATTGAAGACCACTCCAATCAAACATGTCTTGCTAAACTTCTTATG
TTCCAGTCTTCTCATCAACCAACTGACATTACTACCCTAGACCAGTATGTGGAAAGAATGAAGGGAAAACAAGACAAAAT
CTACTTCATGGCTGGATCCAGCAGAAAAGAGGCTGAATCTTCTCCATTTGTTGAACGACTTCTGAAAAAAGGCTATGAAG
TTATTTACCTCACAGAACCTGTGGGTGAATACTGCATTCAGGCCCTTCCCAAATTTGATGGGAAGAGGTTCCAGAATGTT
GTCAAGGAAGAAATGAAGTTTGATGAAAGTGAGAAAACTAAGGAGAGTCATGAAGCAGTTGAGAAAGAATTTGAGCCTCT
GCTCAATTGGATGAAAGATAAAGCCCTTAAGGACAAAATTGAGAAGGCTGTGGTGTCTCAGCACCTGACAGAATCTCCGT
GTACTTTGGTGGCCAGCCAGTACAGACGGTCTGGCAACATGGAGAGAATCATGAAAGCACAAGCGTACCAAACAAGCAAG
GGCAGCTCTACAAATTACTATGCAAGTCAGAAGAAAACATTTGAAATCAATCCCAGACACCCGCTGATCAGAGACACGCT
TCGATGAATTAAGGAAGGTGAAGATGATAAAATAGTTTTGGTTCTTGCTGTGGTTTTGTGTGAAACAGCAACACTTCAGT
CAGGATATCTTTTACCAGACACTAAAGCATATGGAGACAGAATAGAAAGAATGCTTCGCTCAGTTTGAACATTGACCCTG
ATGCAAAGGTGGAAGAAGAACCCAAAGAAGAACCTGAAGACACAACAGAAGACACGGAGCAAGATGAAGATGAAGAAATG
GATGTAGGAACAGATGAAGAACAACAAGAAACAGCAAAGGAATCTACAACTGAAAAAGATAAACTG

Alignment

ORF - retro_nleu_993 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.43 %
• Parental protein coverage: 56.34 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  EDEYKAFYKSFSKESDDPMAYIHFTAEGEVTFKSILFVPTSAPRGLFDEYGSKKSDYIKLYVRRVFITDD
          EDEYKAFYKS.SKESDDPMAYIHFTAEGEVTFKSILFVPTS.P.GLFD.YGSKKSDYIKLYV..VFITDD
Retrocopy EDEYKAFYKSSSKESDDPMAYIHFTAEGEVTFKSILFVPTSDPCGLFDAYGSKKSDYIKLYVLCVFITDD

Parental  FHDMMPKYLNFVKGVVDSDDLPLNVSRETLQQHKLLKVIRKKLVRKTLDMIKKIADDKYNDTFWKEFGTN
          FHDMMPKYLNFVKGVVDSDDLPLNVS.ETLQQHKLLK.IRKKLV.KTLDMIKK.AD.KYNDTFWKEFGTN
Retrocopy FHDMMPKYLNFVKGVVDSDDLPLNVSLETLQQHKLLKDIRKKLVCKTLDMIKKTADEKYNDTFWKEFGTN

Parental  IKLGVIEDHSNRTRLAKLLRFQSSHHPTDITSLDQYVERMKEKQDKIYFMAGSSRKEAESSPFVERLLKK
          IKLG.IEDHSN.T.LAKLL.FQSSH.PTDIT.LDQYVERMK.KQDKIYFMAGSSRKEAESSPFVERLLKK
Retrocopy IKLGMIEDHSNQTCLAKLLMFQSSHQPTDITTLDQYVERMKGKQDKIYFMAGSSRKEAESSPFVERLLKK

Parental  GYEVIYLTEPVDEYCIQALPEFDGKRFQNVAKEGVKFDESEKTKESREAVEKEFEPLLNWMKDKALKDKI
          GYEVIYLTEPV.EYCIQALP.FDGKRFQNV.KE..KFDESEKTKES.EAVEKEFEPLLNWMKDKALKDKI
Retrocopy GYEVIYLTEPVGEYCIQALPKFDGKRFQNVVKEEMKFDESEKTKESHEAVEKEFEPLLNWMKDKALKDKI

Parental  EKAVVSQRLTESPCALVASQYGWSGNMERIMKAQAYQTGKDISTNYYASQKKTFEINPRHPLIRDMLRRI
          EKAVVSQ.LTESPC.LVASQY..SGNMERIMKAQAYQT.K..STNYYASQKKTFEINPRHPLIRD.LR.I
Retrocopy EKAVVSQHLTESPCTLVASQYRRSGNMERIMKAQAYQTSKGSSTNYYASQKKTFEINPRHPLIRDTLR*I

Parental  KEDEDDKTVLDLAVVLFETATLRSGYLLPDTKAYGDRIERMLR-LSLNIDPDAKVEEEPEEEPEETTEDT
          KE.EDDK.VL.LAVVL.ETATL.SGYLLPDTKAYGDRIERMLR.LSLNIDPDAKVEEEP.EEPE.TTEDT
Retrocopy KEGEDDKIVLVLAVVLCETATLQSGYLLPDTKAYGDRIERMLR<LSLNIDPDAKVEEEPKEEPEDTTEDT

Parental  TEDTEQDEDEEMDVGTDEEEQETAKESTAEKDEL
          ....EQDEDEEMDVGTDEE.QETAKEST.EKD.L
Retrocopy ----EQDEDEEMDVGTDEEQQETAKESTTEKDKL

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_993 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 5 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000166598	2 retrocopies	retro_hsap_1530, retro_hsap_184,
Macaca mulatta	ENSMMUG00000023469	1 retrocopy	retro_mmul_391,
Nomascus leucogenys	ENSNLEG00000006510	1 retrocopy	retro_nleu_993 ,
Nomascus leucogenys	ENSNLEG00000015925	3 retrocopies	retro_nleu_714, retro_nleu_822, retro_nleu_854,
Pan troglodytes	ENSPTRG00000005372	1 retrocopy	retro_ptro_170,