RetrogeneDB ID: retro_nleu_2216

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397335.1:4615579..4616497(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CEP57L1
• Ensembl ID: ENSNLEG00000012502
• Aliases: None
• Description: None

Sequence

>retro_nleu_2216
GAACATTCTCTCCAGAGAAGCAGCACAGAGAGAATGAAACAAATGAGAGAAATCTGGCACACCAGGAGCTGATAAAGCAG
AAAAAAGATAAGTATACAGTTAAGCTCAGCCCGGTCTCGTTGCACTCTTCTAGAGAAGCAACTAGAATATACAAAGAGAA
TGGTTCTCAATGTAGAGCGAGAAAAGAACATGATCCTAGAACAACAGGCCCAGCTTCGGAGGGAAAAAGAACAAGATCAG
ATGAAGCTGTGTGCAAAACTCGAAAAGCTTGATGTCTTAGAAAAAGAGTGTTTTAGACTTACAACAACTCAGAAAACTGC
TGAGGACAAGATTAAACATTTAGAAGAAAAACTTAAGGAAGAAGAACCTCAACGTAAGCTATTTCAAGACAAAGCTTCTG
AGCTTCAAACTGGACTTGAAACCAGTAAAATTATAATGTCTTCAGTTTCAAATCTAAGGCACTCCAAGGAAAAGAAGAAA
TCTTCAAAGAAAACTAAATGTATAAAGAGAGGACCACCTTGGCAAATTTGTTCAAAGTTTGGAGCACTGCCTTTTGTGGG
TGAAAAGATGAGGCAACATCGTGACCTACATATCCTTCAGAAACCTTTTAACGTGACTGAGACTAGATGTCTCCCCAAGC
CTTCTAGAACAACTTCCTGGTGTAAGGCTATTCCTCCTGACTCAGAAAAGTCCATTTCCATTTGTGACAATTTATCTGAA
CTTTTGATGGCAATGCAAGATGAGCTGAACCAAATGAGCATGGAGCACCAAGAACTACTGAAACAAATGAAGGAAACTGA
AAGCCATTCAGTCTGTGACGACATAGAATGTGAACTAGAGTGTTTAGTCAAGAAAATGGAAATTAAAGGAGAACAAATCT
CCAAACTGAAGAAGCATCAAGACAGTATAGGAAGGCTT

Alignment

ORF - retro_nleu_2216 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.58 %
• Parental protein coverage: 65.52 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EAAQYKKALENETNERNLAHQELIKQKKDISIQLSSAQSRCTLLEKQLEYTKRMVLNVEREKNMILEQQA
          E........E.....R...H.......K.ISIQLSSA.SRCTLLEKQLEYTKRMVLNVEREKNMILEQQA
Retrocopy EHSLQRSSTERMKQMREIWHTRS**SRKKISIQLSSARSRCTLLEKQLEYTKRMVLNVEREKNMILEQQA

Parental  QLQREKEQDQMKLYAKLEKLDVLEKECFRLTTTQKTAEDKIKHLEEKLKEEEHQRKLFQDKASELQTGLE
          QL.REKEQDQMKL.AKLEKLDVLEKECFRLTTTQKTAEDKIKHLEEKLKEEE.QRKLFQDKASELQTGLE
Retrocopy QLRREKEQDQMKLCAKLEKLDVLEKECFRLTTTQKTAEDKIKHLEEKLKEEEPQRKLFQDKASELQTGLE

Parental  ISKIIMSSVSNLKHSKEKKKSSKKTKCIKRGPPWQICSKFGALPFVAEKMRQHRDPHILQKPFNVTETRC
          .SKIIMSSVSNL.HSKEKKKSSKKTKCIKRGPPWQICSKFGALPFV.EKMRQHRD.HILQKPFNVTETRC
Retrocopy TSKIIMSSVSNLRHSKEKKKSSKKTKCIKRGPPWQICSKFGALPFVGEKMRQHRDLHILQKPFNVTETRC

Parental  LPKPSRTTSWCKAIPPDSEKSISICDNLSELLMAMQDELDQMSMEHQELLKQMKKTESHSVCDDIECELE
          LPKPSRTTSWCKAIPPDSEKSISICDNLSELLMAMQDEL.QMSMEHQELLKQMK.TESHSVCDDIECELE
Retrocopy LPKPSRTTSWCKAIPPDSEKSISICDNLSELLMAMQDELNQMSMEHQELLKQMKETESHSVCDDIECELE

Parental  CLLKKMEIKGEQISKLKKHQDSVRKL
          CL.KKMEIKGEQISKLKKHQDS...L
Retrocopy CLVKKMEIKGEQISKLKKHQDSIGRL

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_2216 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
Homo sapiens	ENSG00000183137	1 retrocopy	retro_hsap_591,
Gorilla gorilla	ENSGGOG00000014982	1 retrocopy	retro_ggor_523,
Nomascus leucogenys	ENSNLEG00000007130	1 retrocopy	retro_nleu_888,
Nomascus leucogenys	ENSNLEG00000012502	1 retrocopy	retro_nleu_2216 ,
Otolemur garnettii	ENSOGAG00000015479	1 retrocopy	retro_ogar_902,
Pongo abelii	ENSPPYG00000016901	1 retrocopy	retro_pabe_598,
Pan troglodytes	ENSPTRG00000018480	1 retrocopy	retro_ptro_434,