RetrogeneDB ID: retro_nleu_655

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397269.1:40446487..40447570(+)
• Located in intron of: ENSNLEG00000007110

Retrocopy information

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

Parental gene information

• Parental gene symbol: PPP2R5C
• Ensembl ID: ENSNLEG00000015727
• Aliases: None
• Description: None

Sequence

>retro_nleu_655
TTAAAAGATGTCCCTCCTGCTGGTCAAGAGAAGCTTTTTATCCAGAAGTTATGTCAGTGTTGCGTCTTTTTTGACTTTGT
TTCTGATCCACTAAGTGACCTAAAGTGGAAGGAAGTAAAACGAACTGCTGTAAGTGAAATGGTAGAATATATCACCCATA
ATTGGAATGTGATCACAGAGCCTATTTACCCAGAAGTAGTCCATATGTTTGCAGTTAACATGTTTCGAACGTTACTACCT
TCCTCCAATCCTACAGGAGCAGAATTTGACCCAGAGGAAGATGAACCAACATTAGAAGCAGCTGGCTTCATCTACACTTG
TTTATGAATTTTTCTTAAGATTTTTAGAGTCTCCAGATTTCCAACCTAATATAGCGAAGAAATATATTGATCAGAAGTTT
GTATTGCAGCTTTTAAAGCTCTTTGACAGTGAAGATCCTCGGGAGAGAGATGTTCTTAAAACCACCCTTCACAGAATCTA
TGGGAAATTCCTAGGCTTGAGAGCTTACATCAGAAAACAGATAAATAATATATTTTATAGGTTTATTTATGAAACAGGGC
ATCATAATGGCATAGCAGAGTTACTGGAAATATTGGGAAGTATAATCAATGGATTTGCCTTACCATAAAAAAAGAACACA
AGATTTTCTTATTGAAGGTGTTACTACCTTTGCACAAAGTGAAATCTCTGAGTGTCTACCACCCCCAGCTGGCATACTGT
GGAGTGCAGTTTTTAGAAAAGGACAGCACCCCCACAGAACCAGTGGTGATGGCACTTCTCAAATACTGGCCAAAGACTCA
CAGTCCAAAAGAAGTAATGTTCTTAAACGAATTAGAAGCGATTTTAGATGTCATTGAACCATCAGAATTTGTGAAGACCA
TGGAGCCCCTCTTCCGGCAGTTGGCCAAATGTGTCTCCAGCCCACACTTCCAGGTGGCAGGGCGAGCTCTCTATTACTGG
AATAATGAATACATCATGAGTTTAATCAGTGACAACGCAGCGAAGATTCTGCCCATCATGTTTCCTTCCTTGTACCACAA
CTCAAAGACCCATTGGAACAAGATAATACATAGCTTGATATAT

Alignment

ORF - retro_nleu_655 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.6 %
• Parental protein coverage: 69.08 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  IRDVPPADQEKLFIQKLRQCCVLFDFVSDPLSDLKWKEVKRAALSEMVEYITHNRNVITEPIYPEVVHMF
          ..DVPPA.QEKLFIQKL.QCCV.FDFVSDPLSDLKWKEVKR.A.SEMVEYITHN.NVITEPIYPEVVHMF
Retrocopy LKDVPPAGQEKLFIQKLCQCCVFFDFVSDPLSDLKWKEVKRTAVSEMVEYITHNWNVITEPIYPEVVHMF

Parental  AVNMFRTLPPSSNPTGAEFDPEEDEPTLEAA-WPHLQL-VYEFFLRFLESPDFQPNIAKKYIDQKFVLQL
          AVNMFRTL.PSSNPTGAEFDPEEDEPTLEAA.W.HL.L.VYEFFLRFLESPDFQPNIAKKYIDQKFVLQL
Retrocopy AVNMFRTLLPSSNPTGAEFDPEEDEPTLEAA<WLHLHL<VYEFFLRFLESPDFQPNIAKKYIDQKFVLQL

Parental  LELFDSEDPRERDFLKTTLHRIYGKFLGLRAYIRKQINNIFYRFIYETEHHNGIAELLEILGSIINGFAL
          L.LFDSEDPRERD.LKTTLHRIYGKFLGLRAYIRKQINNIFYRFIYET.HHNGIAELLEILGSIINGFAL
Retrocopy LKLFDSEDPRERDVLKTTLHRIYGKFLGLRAYIRKQINNIFYRFIYETGHHNGIAELLEILGSIINGFAL

Parental  P-LKEEHKIFLLKVLLPLHKVKSLSVYHPQLAYCVVQFLEKDSTLTEPVVMALLKYWPKTHSPKEVMFLN
          P..K.EHKIFLLKVLLPLHKVKSLSVYHPQLAYC.VQFLEKDST.TEPVVMALLKYWPKTHSPKEVMFLN
Retrocopy P<IKKEHKIFLLKVLLPLHKVKSLSVYHPQLAYCGVQFLEKDSTPTEPVVMALLKYWPKTHSPKEVMFLN

Parental  ELEEILDVIEPSEFVKIMEPLFRQLAKCVSSPHFQVAERALYYWNNEYIMSLISDNAAKILPIMFPSLYR
          ELE.ILDVIEPSEFVK.MEPLFRQLAKCVSSPHFQVA.RALYYWNNEYIMSLISDNAAKILPIMFPSLY.
Retrocopy ELEAILDVIEPSEFVKTMEPLFRQLAKCVSSPHFQVAGRALYYWNNEYIMSLISDNAAKILPIMFPSLYH

Parental  NSKTHWNKTIHGLIY
          NSKTHWNK.IH.LIY
Retrocopy NSKTHWNKIIHSLIY

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_655 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 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000078304	2 retrocopies	retro_hsap_2649, retro_hsap_3796,
Nomascus leucogenys	ENSNLEG00000015727	2 retrocopies	retro_nleu_1125, retro_nleu_655 ,
Otolemur garnettii	ENSOGAG00000006274	1 retrocopy	retro_ogar_1944,
Pongo abelii	ENSPPYG00000006152	3 retrocopies	retro_pabe_2322, retro_pabe_2414, retro_pabe_3101,
Pan troglodytes	ENSPTRG00000006734	1 retrocopy	retro_ptro_1784,