RetrogeneDB ID: retro_nleu_621

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397268.1:26078707..26079472(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BZW1
• Ensembl ID: ENSNLEG00000006929
• Aliases: None
• Description: None

Sequence

>retro_nleu_621
CTAATGGCATCCATTCTTAATAGCCTTTATAATGAGAATTTGGTTAAAGAAGGGGTTTCAGCAGCTTTTGCTGTAAAGCT
CTTTAAATCATGAATAAATGAAAAAGATATCAATGCGGTAGCTGCAAGGAAAGTCAGCATGGATAACAGCCTGATGGAAC
TTTTTCCTGCCAATAAGCAAAGCGTTAAACACTTCACAAGGTATTTTACTGAGGCAGGCTTGAAAGAGCTTTCAGAATAT
GTTCGGAATCAGCAAACCATCAGAGCTTGTAAGGAGCTCCAAAAAGAACTTCAGGAACAGATGTTCTGTGGGGATCCATT
TAAGGATATAATTTTATATGTCAAGGAGGAGATGAAAAAAAACAACATCCCAGAACCAGTTGTCATCGAAATAGTCTGGT
CAAATGTAATAAGCACTGTGTAATGGAACAAAAGAGAGGAGCTTGTAGCAGAGCAAGCCATCAAACACTTGAAGCAATAT
AGCCCTCTATTTGCTGCCTTTACTACTCAAGGTCAGTCTGAGCTGACTCTGTTACTGAAGATTCAGGAGTATTGCTGTGA
CAACATTCATTTCATGAAAGCCTTCCAGAAAATAGTGCTGCTTTTTTATAAAGCTGTAGTCCTGAGCAAAGAGCCCATTT
TGAAGTGGTATAAAGGTACACATGTTGCAAAGGGGAAGAGTGTTTTCCTTGAGCAAATGAAAAAGTTTGGAGAGTGGCTC
AAAAATGCTGAAGAAGAATCTGAATCTGAAGCTGAAGAAGGTGAC

Alignment

ORF - retro_nleu_621 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.05 %
• Parental protein coverage: 56.98 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LNASILNSLYNENLVKEGVSAAFAVKLFKSWINEKDINAVAASLRKVSMDNRLMELFPANKQSVEHFTKY
          L.ASILNSLYNENLVKEGVSAAFAVKLFKS.INEKDINAVAA..RKVSMDN................T.Y
Retrocopy LMASILNSLYNENLVKEGVSAAFAVKLFKS*INEKDINAVAA--RKVSMDNSXXXXXXXXXXXXXXXTRY

Parental  FTEAGLKELSEYVRNQQTIGARKELQKELQEQMSRGDPFKDIILYVKEEMKKNNIPEPVVIGIVWSSVMS
          FTEAGLKELSEYVRNQQTI.A.KELQKELQEQM..GDPFKDIILYVKEEM...NIPEPVVI.IVWS.V.S
Retrocopy FTEAGLKELSEYVRNQQTIRACKELQKELQEQMFCGDPFKDIILYVKEEMXXXNIPEPVVIEIVWSNVIS

Parental  TVEWNKKEELVAEQAIKHLKQYSPLLAAFTTQGQSELTLLLKIQEYCYDNIHFMKAFQKIVVLFYKAEVL
          TV.WNK.EELVAEQAIKHLKQYSPL.AAFTTQGQSELTLLLKIQEYC.DNIHFMKAFQKIV.LFYKA.VL
Retrocopy TV*WNKREELVAEQAIKHLKQYSPLFAAFTTQGQSELTLLLKIQEYCCDNIHFMKAFQKIVLLFYKAVVL

Parental  SEEPILKWYKDAHVAKGKSVFLEQMKKFVEWLKNAEEESESEAEEGD
          S.EPILKWYK..HVAKGKSVFLEQMKKF.EWLKNAEEESESEAEEGD
Retrocopy SKEPILKWYKGTHVAKGKSVFLEQMKKFGEWLKNAEEESESEAEEGD

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_621 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 9 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000011878	1 retrocopy	retro_cfam_2150,
Choloepus hoffmanni	ENSCHOG00000003543	8 retrocopies	retro_chof_1519, retro_chof_2060, retro_chof_2092, retro_chof_2451, retro_chof_2517, retro_chof_689, retro_chof_726, retro_chof_838,
Cavia porcellus	ENSCPOG00000010449	1 retrocopy	retro_cpor_331,
Homo sapiens	ENSG00000082153	2 retrocopies	retro_hsap_2832, retro_hsap_2881,
Gorilla gorilla	ENSGGOG00000016296	1 retrocopy	retro_ggor_1997,
Mustela putorius furo	ENSMPUG00000012344	1 retrocopy	retro_mputfur_1174,
Mus musculus	ENSMUSG00000051223	3 retrocopies	retro_mmus_2499, retro_mmus_751, retro_mmus_990,
Nomascus leucogenys	ENSNLEG00000006929	1 retrocopy	retro_nleu_621 ,
Pan troglodytes	ENSPTRG00000012791	1 retrocopy	retro_ptro_1949,