RetrogeneDB ID: retro_nleu_255

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397262.1:43277088..43277715(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: POLR2E
• Ensembl ID: ENSNLEG00000001207
• Aliases: None
• Description: None

Sequence

>retro_nleu_255
ATGGACGACGAGGAGGACACATACTGGCTCTGGAAAATCCGCAAGACCGTCATGCAGCTGTGCCATGACCGTGGCTACCT
AGTGACCTAGGACGAGCTTGACCAGACACTGAAGGAGTTCAAAGCCCAGTCTGGGGACAAGCCAAGTGAGGGGCAGCCAC
GGCGTACAGACCTCACCGTGCTGGTGACCCACAACAATGACCCCACCAACGAGATGTTTGTGTTCTTTCCAGAGGAGCCC
AAGGTGGGCATCAAGCCCCTCAACGTGTATTGCCAGCGCATGCAGCAGGAGAACATCACGCGGGTCCTCATCGTGGTGCA
TCAGGGCATGACGCCCTCCGCCAAGTAGTGCCTGGTCAACATGGCTCCCAAGTACATCCTAGAGCAGTTACTGCAGCAGA
AGTTGCTCATCAACATCACAGAGCACGAGCTAGTCCCTGAGTACGTTGTCATGACCAAGGAGGAGGTGACAGTGCTGTTG
GCCCAATATAAGCTCCGAGAGAGCCAGCTGCCCAGGAACCAGGCGGGGGATGCCATGGCGTGCTACTTGGGGATAATGCA
TGGGCAGGTAATGATCATCCGGCCCAGCGAGATGGCGGGCAGGTACCTCACCTACGGGCTGGTGCAG

Alignment

ORF - retro_nleu_255 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.43 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MDDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVLVAHNDDPTD
          MDDEE.TY.LWKIRKT.MQLCHDRGYLVT.DELDQTL.EFKAQ.GDKPSEG.PRRTDLTVLV.HN.DPT.
Retrocopy MDDEEDTYWLWKIRKTVMQLCHDRGYLVT*DELDQTLKEFKAQSGDKPSEGQPRRTDLTVLVTHNNDPTN

Parental  QMFVFFPEEPKVGIKTIKVYCQRMQEENITRALIVV-QGMTPSAKQSLVDMAPKYILEQFLQQELLINIT
          .MFVFFPEEPKVGIK...VYCQRMQ.ENITR.LIVV.QGMTPSAK..LV.MAPKYILEQ.LQQ.LLINIT
Retrocopy EMFVFFPEEPKVGIKPLNVYCQRMQQENITRVLIVVHQGMTPSAK*CLVNMAPKYILEQLLQQKLLINIT

Parental  EHELVPEHVVMTKEEMTELLARYKLRENQLPRIQAGDPVARYFGIKRGQVVKIIRPSETAGRYITYRLVQ
          EHELVPE.VVMTKEE.T.LLA.YKLRE.QLPR.QAGD..A.Y.GI..GQV..IIRPSE.AGRY.TY.LVQ
Retrocopy EHELVPEYVVMTKEEVTVLLAQYKLRESQLPRNQAGDAMACYLGIMHGQVM-IIRPSEMAGRYLTYGLVQ

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_255 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000099817	1 retrocopy	retro_hsap_822,
Myotis lucifugus	ENSMLUG00000013193	1 retrocopy	retro_mluc_1636,
Monodelphis domestica	ENSMODG00000005494	1 retrocopy	retro_mdom_1725,
Mustela putorius furo	ENSMPUG00000008953	1 retrocopy	retro_mputfur_1524,
Nomascus leucogenys	ENSNLEG00000001207	1 retrocopy	retro_nleu_255 ,
Pongo abelii	ENSPPYG00000009305	1 retrocopy	retro_pabe_733,