RetrogeneDB ID: retro_nleu_564

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397267.1:10912422..10914488(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AKR1A1
• Ensembl ID: ENSNLEG00000014434
• Aliases: None
• Description: None

Sequence

>retro_nleu_564
AAAGTGGAGAGAATGGAGAATGATGTGTTGGGAAACACCTTGGAAGGTGTGCATGTGGAAGAGGAAGAAGGAGAAAAAAC
AGAAGATGAATCTCTGGTAGGAAATAATGATAACATAGATGAGGAAGCAAGGGAAGAGTTGAGAGAACAGGTTTATGACG
CCATGGGAGAAAAAAAAGAAGCCAGAAAAACAGAAGACAAGTCTTTGGCAAAGCCTGAAACTGATAAAGAACGAGACAGT
GAAATGGAGAAGGGTGGAAGAGAAGATATGGATATAAGTGAATCTGCAGAGGAGCCACAGGAAAAAGTTGACTTGACTCT
AGATTGGTTAACTGAAACCTCTGAAGAGGCAAAAGGAGGAGCAGCACCAGAAGGACCGAATGAAGCTGAGGTCACTTCAG
GGAAGCCAGAACAGGAAGTACCAGATGCTGAGGAAGAAAAATCAGTTTCTGAAACTGATGTCCAAGAAGAGTGCAGAGAA
AAAGGAGGTAGGAAGAAGCAGGGAGAGGTAATTGTGAGCACAGAGGAGAAGCCAAAAGAAGTTTCAGAAGAGCAGCCTGT
GGTGACTCTAGAAAAGCAGGGCACTGCAGTGGAGATAGAAGCAGAGTCTTTAGACCCAACAGTCAAGCCAGTAGATGTGG
GTGGGGACGAGCCAGAGGAGAAGGTAGTTACCTCTGAAAATGAGGAAGGAAAGGTGATTCTTGAGCAACTGGTAGGTCAA
GAAGTGCCACCTGCTGAAGAGTCACCAGAGGTGACAACAGAGGCTGCAGAGGCCTCAACTGTAGAGGCTGGATCAGAAGT
CTCTGAAAAGCCTGGGCAGGAGGCTACAGTTCTCCCTAAGGATGGTGCAGTCAATGGACCGTCAGCTGTAGGAGATCAGA
CTCCTATTGAACCACAGACTTCTATAGAAAGACTGACAGAAACAAAAGATGGCTCAGGACTAGAGGAGAAGGTCAGAGCA
AAGCTGGTTCCCAGTCAGGAGGAGACTAAGCTGTCTGTAGAAGAGTTTGGGCAGCTGGAGATGGGGTTGATACCCAGGTA
GCCCAGGGAGCTACTGAGAAATCACCTGAAGACAAAGTTCAGATAGCTGCTAATGAAGAGATAAAAGAGAGAGAACAGAT
AAAAGAGGGTGAAGAAACTGAAGGCTCAGAAGAGGATGATAAAGAAAATGATAAGACTGAAGAAATGCCAAACGATTCAG
TCCTTGAAAACAAGTCTCTTCAAGAAAACGAAGAGGAGGAGATTGGGAACCTAGAGCTTGCCTGGAGTATGCTGGATTTA
GCAAAGATCGTTTTTAAAAGGCAAGAAACAAAAGCCCAGCTTTATGTTGCCCAGGCACATCTTAAACTCGGAGAAGTTAG
TGTTGAATCTGAAAACTATGTGCAAGCTGTGGAGGAGTTCCTGTCCTGCCTAAACCTGTAGGAACAGTACCTGGAAGCCC
ACGACCATCTCCTTGCAGAGACCCACTACCAGCTGGGCTTGGCTTATGGGTACAACCCTCAGTATGATGAGGCAGTGGCA
CAGTTCAGCAAATCTATTGAAGTCATTGAGAAGAGAATGGCTGTACTAAACGAGCAGGTGAAGGAGGCTGAAGGATCATC
TGCTGAATACAAGAAAGAAATCAAGGAACTGAAGGAACTGCTACCCGAAATTAGAGAGAAGACAGAAGATGCAAAGGAGT
CTCAGCATACTGGGAATGTAGCTGAACTGGCTCTGAAAGCTACTCTGGTGGAGAGCTCTACTTCAGGTTTCACCCCTAGT
GGAGGAGGCTCTTCAGTCTCCATGATTGCCAGCAAAAAGCCAACAGATGGTGCTTCCTCATTAAATTGCGTGACTGATAT
TTCCCACCTTGTCAGAAAGAAGAGGAAACCAGAGGAACAGGGTCCCCAGAAAGATGATGCAAAGAAAGCCAAACAAGAGC
TGGAGGTGAACGGAGGCAGTGGAGATGCTGTCCCCAGTGGAAATGAAGTTTTGGAAAACATGGAGGAGGAGGCTGAGAAT
TGGGCTGAAAGCTGGGTGGCAGTGGAGGGGACAGTGGAGGCTGGAGCTACAGTTGAAAGCACTGCA

Alignment

ORF - retro_nleu_564 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.33 %
• Parental protein coverage: 64.22 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ELARMENGVLGNALEGVHVEEEEGEKTEDESLVENNDNIDEEAREELREQVYDAMGEKEEAKKTEDKSLA
          ...RMEN.VLGN.LEGVHVEEEEGEKTEDESLV.NNDNIDEEAREELREQVYDAMG...EA.KTEDKSLA
Retrocopy KVERMENDVLGNTLEGVHVEEEEGEKTEDESLVGNNDNIDEEAREELREQVYDAMGXXXEARKTEDKSLA

Parental  KPETDKEQDSEMEKGGREDMDISESAEEPQEKVDLTLDWLTETSEEAKGGAAPEGPNEAEVTSGKPEQEV
          KPETDKE.DSEMEKGGREDMDISESAEEPQEKVDLTLDWLTETSEEAKGGAAPEGPNEAEVTSGKPEQEV
Retrocopy KPETDKERDSEMEKGGREDMDISESAEEPQEKVDLTLDWLTETSEEAKGGAAPEGPNEAEVTSGKPEQEV

Parental  PDAEEEKSVSGTDVQEECREKGGQEKQGEVIVSIEEKPKEVSEEQPVVTLERQGTAVEVEAESLDPTVKP
          PDAEEEKSVS.TDVQEECREKGG..KQGEVIVS.EEKPKEVSEEQPVVTLE.QGTAVE.EAESLDPTVKP
Retrocopy PDAEEEKSVSETDVQEECREKGGRKKQGEVIVSTEEKPKEVSEEQPVVTLEKQGTAVEIEAESLDPTVKP

Parental  VDVGGNEPEEKVVTSENKAGKAVLEQLVGQEMPPAEESPEVTTEAAEASAVEAGSEVSEKPGQEAPVLPK
          VDVGG.EPEEKVVTSEN..GK..LEQLVGQE.PPAEESPEVTTEAAEAS.VEAGSEVSEKPGQEA.VLPK
Retrocopy VDVGGDEPEEKVVTSENEEGKVILEQLVGQEVPPAEESPEVTTEAAEASTVEAGSEVSEKPGQEATVLPK

Parental  DGAVNGPSVVGDQTPIEPQTSIEGLTETKDGSGLEEKVRAKLVPSQEETKLSVEESE-AAGDGVDTKVAQ
          DGAVNGPS.VGDQTPIEPQTSIE.LTETKDGSGLEEKVRAKLVPSQEETKLSVEE...AAGDGVDT.VAQ
Retrocopy DGAVNGPSAVGDQTPIEPQTSIERLTETKDGSGLEEKVRAKLVPSQEETKLSVEEFG<AAGDGVDTQVAQ

Parental  GATEKTPEDKVQIAANEETQEREEQMKEGEETEGSEEDDKENDKTEEMPNDSVLENKSLQENEEEEIGNL
          GATEK.PEDKVQIAANEE..ER.EQ.KEGEETEGSEEDDKENDKTEEMPNDSVLENKSLQENEEEEIGNL
Retrocopy GATEKSPEDKVQIAANEEIKER-EQIKEGEETEGSEEDDKENDKTEEMPNDSVLENKSLQENEEEEIGNL

Parental  ELAWDMLDLAKIIFKRQETKEAQLYAAQAHLKLGEVSVESENYVQAVEEFQSCLNLQEQYLEAHDRLLAE
          ELAW.MLDLAKI.FKRQETK.AQLY.AQAHLKLGEVSVESENYVQAVEEF.SCLNL.EQYLEAHD.LLAE
Retrocopy ELAWSMLDLAKIVFKRQETK-AQLYVAQAHLKLGEVSVESENYVQAVEEFLSCLNL*EQYLEAHDHLLAE

Parental  THYQLGLAYGYNSQYDEAVAQFSKSIEVIEKRMGVLNEQVKEAEGSSAEYKKEIEELKELLPEIREKIED
          THYQLGLAYGYN.QYDEAVAQFSKSIEVIEKRM.VLNEQVKEAEGSSAEYKKEI.ELKELLPEIREK.ED
Retrocopy THYQLGLAYGYNPQYDEAVAQFSKSIEVIEKRMAVLNEQVKEAEGSSAEYKKEIKELKELLPEIREKTED

Parental  AKESQRSGNVAELALKATLVESSTSGFTPGGGGSSVSMIASRKPTDGASSSNCVTDISHLVRKKRKPEEE
          AKESQ..GNVAELALKATLVESSTSGFTP.GGGSSVSMIAS.KPTDGASS.NCVTDISHLVRKKRKPEE.
Retrocopy AKESQHTGNVAELALKATLVESSTSGFTPSGGGSSVSMIASKKPTDGASSLNCVTDISHLVRKKRKPEEQ

Parental  SPRKDDAKKAKQEPEVNGGSGDAVPSGNEVSENMEEEAENRAESRAAVEGTVEAGATVESTA
          .P.KDDAKKAKQE.EVNGGSGDAVPSGNEV.ENMEEEAEN.AES..AVEGTVEAGATVESTA
Retrocopy GPQKDDAKKAKQELEVNGGSGDAVPSGNEVLENMEEEAENWAESWVAVEGTVEAGATVESTA

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_564 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 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000010436	1 retrocopy	retro_chof_2560,
Homo sapiens	ENSG00000132780	1 retrocopy	retro_hsap_4064,
Macropus eugenii	ENSMEUG00000001037	1 retrocopy	retro_meug_1359,
Mus musculus	ENSMUSG00000028693	1 retrocopy	retro_mmus_1217,
Nomascus leucogenys	ENSNLEG00000014434	1 retrocopy	retro_nleu_564 ,
Pongo abelii	ENSPPYG00000001409	1 retrocopy	retro_pabe_3338,
Pan troglodytes	ENSPTRG00000000677	1 retrocopy	retro_ptro_2754,