RetrogeneDB ID: retro_nleu_1651

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397302.1:12333157..12334691(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZNF341
• Ensembl ID: ENSNLEG00000010013
• Aliases: None
• Description: None

Sequence

>retro_nleu_1651
CCACCTCACCCAGCCTTCACCCCCTCCTCTACCACTGCCCTTACCACTCCACCCCAGAGCCTGGGCCCCCCTGGGCATCC
CAATCCTGGTGGGAATGGTGTGGTGAAGGAGTACAGTGGTGCTGCACTCCTGGCTGGGAGTGGAATGGTGGAGATCCAGG
CACTGGGGATGCAGCCCTACCCACCCCTGGAGGTGCCAAACCAGTGTGTGGAGGCTCCAGTATACCCCACCCCCGCAGTG
TACAGCCCTGGCAAAAAGGGATTCAAACCCAAAGGACCAAACCCTGCTGCCCCATGACCAGTGCCACTGGGGGCACCGTG
GCCACCTTTGACTCTCCACCAATGCTGAAGACCCCACAGGCTAAAGGTGCCAGGGGACTCCCGGAAGCTACAGGGAAGCC
AAAGGCTCAGAAACTCATGTGCCCATACTGTGACAAGTCATTCACCAAAAACTTCGAACTGCAGTAGCACATCTGAAGCC
ACACGGGTGAGAAGCCCTTCCAATACATTGCGTGTGGCCGTGCCTTTGCTCAGAAGTCTAATGTTAAGAAACACATACAG
ACCCACAAGGTATGGCCTCCAGGACACGGTGGTGGCACTGTGTCTCGAAACTCTGTGACTGTACAGTTCTTGGCCCTGAA
CCCCAGTAGGCAGGAGGATGAGGAAAACACAGGATTGGGCCAGCCTCTGCCGAGCACGCCACAGCCCCTGGCCTTGCCCA
CAGCCGGCGAGGGCAAGGGGCAAGCCGGAACCCAAGCAGGTAGTCCTCATCTACAGCTCCTACTTGTTCCAGTTCTGCCC
CAGCAAGTTCAGCACCTATATCCAGCTCAAGTCTCACATGACCCAGCATAAGAACGAGCAGGTGTACAAGTGTGTGGTCA
AAAGCTGTGCCCAGAGGTTCTCAAAGCTCGACACATTTCTGGAGCACATCAAGAGCCACCAGGAGGAGCTGAGCTACCTG
GGCCACCTCTGTGACAAGGACTTCCCCACGCTGTACGACCTGGGTGTGCACCAGTACTCCCACAGTCTCCTACCACAGCA
CAGCCCCAAGAAGGACAGTGCCCTCTACAAGTGTGTCAAACGTGTCAACAAATACCCACCCCGGAGGCCCTGGAGCATCA
CCTGCAGACCGCCACTCACAACTTCTCTGCCCACACTGCTAGAAGGTGTTTCCTTGTGAACGCTACCTGCAGCATCATCT
GCCAACCCATCGCAGCGGGGACAGGTTCAAGGGCCAGGTGTGCAAGAAGTTCTCCCGGCGGGTGCATTACCTCAAACTGC
ACGCTCACAACCACTCAGGCGAGAAGCCCTACAAATGCTCAGTATGCGAGTCTGCATTCAATCGCAAGGACAAACTGAAG
AGACACATGTTGATCCACCAGCCCTTCAAGAAATACAAATGCCCTTTATCCACAAACACAGGCTGCGGTAAGGAGTTCAA
CCGGCCGGACAAGCTGAAGGCCCATGTCCTCTCCCACTCCGGCACGAAGCTCCACAAATGCGCCCTGTGCAGCAAGTCCT
TCAGCCGCCCTGCT

Alignment

ORF - retro_nleu_1651 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.97 %
• Parental protein coverage: 59.86 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  PPPPL-PPPPPPQPPP-PPPQSLGPPGRPNPSGNGVVEVYSGAAPLPGSGTVEIQALGMQPYPPLEVPNQ
          PP.P...PPP.P.P.P..PPQSLGPPG.PNP.GNGVV..YSGAA.L.GSG.VEIQALGMQPYPPLEVPNQ
Retrocopy PPHPA>SPPPLPLPLP<TPPQSLGPPGHPNPGGNGVVKEYSGAALLAGSGMVEIQALGMQPYPPLEVPNQ

Parental  CVEPPVYPTPTVYSPGKQGFKPKGPNPAAP-MTSATGGTVATFDSPPMLKTRRAKGARGLPEAAGKPKAQ
          CVE.PVYPTP.VYSPGK.GFKPKGPNPAAP.MTSATGGTVATFDSPPMLKT..AKGARGLPEA.GKPKAQ
Retrocopy CVEAPVYPTPAVYSPGKKGFKPKGPNPAAP<MTSATGGTVATFDSPPMLKTPQAKGARGLPEATGKPKAQ

Parental  KLKCSYCDKSFTKNFDLQQHIRSHTGEKPFQCIACGRAFAQKSNVKKHMQTHKVWPPGHSGGTVSRNSVT
          KL.C.YCDKSFTKNF.LQ.HI.SHTGEKPFQ.IACGRAFAQKSNVKKH.QTHKVWPPGH.GGTVSRNSVT
Retrocopy KLMCPYCDKSFTKNFELQ*HI*SHTGEKPFQYIACGRAFAQKSNVKKHIQTHKVWPPGHGGGTVSRNSVT

Parental  VQVMALNPSRQEDEENAGLGQPLPGAPQPQAL-PTASEEEGDKPEPKQVVLIDSSYLCQFCPSKFSTYFQ
          VQ..ALNPSRQEDEEN.GLGQPLP..PQP.AL.P......G.KPEPKQVVLI.SSYL.QFCPSKFSTY.Q
Retrocopy VQFLALNPSRQEDEENTGLGQPLPSTPQPLAL>PQPARARG-KPEPKQVVLIYSSYLFQFCPSKFSTYIQ

Parental  LKSHMTQHKNEQVYKCVVKSCAQTFPKLDTFLEHIKSHQEELSYRCHLCGKDFPSLYDLGVHQYSHSLLP
          LKSHMTQHKNEQVYKCVVKSCAQ.F.KLDTFLEHIKSHQEELSY..HLC.KDFP.LYDLGVHQYSHSLLP
Retrocopy LKSHMTQHKNEQVYKCVVKSCAQRFSKLDTFLEHIKSHQEELSYLGHLCDKDFPTLYDLGVHQYSHSLLP

Parental  QHSPKKDNTVYKCVKCVNKYS-TPEALEHHLQTATHNFP-CPHCQKVFPCERYLRRHLPTHGSGGRFKCQ
          QHSPKKD...YKCVK.VNKY..TPEALEHHLQTATHNF..CPHC.KVFPCERYL..HLPTH.SG.RFK.Q
Retrocopy QHSPKKDSALYKCVKRVNKYP<TPEALEHHLQTATHNFS<CPHC*KVFPCERYLQHHLPTHRSGDRFKGQ

Parental  VCKKFFRREHYLKLHAHIHSGEKPYKCSVCESAFNRKDKLKRHMLIHEPFKKYKCPFSTHTGCSKEFNRP
          VCKKF.RR.HYLKLHAH.HSGEKPYKCSVCESAFNRKDKLKRHMLIH.PFKKYKCP.ST.TGC.KEFNRP
Retrocopy VCKKFSRRVHYLKLHAHNHSGEKPYKCSVCESAFNRKDKLKRHMLIHQPFKKYKCPLSTNTGCGKEFNRP

Parental  DKLKAHILSHSGMKLHKCALCSKSFSRRA
          DKLKAH.LSHSG.KLHKCALCSKSFSR.A
Retrocopy DKLKAHVLSHSGTKLHKCALCSKSFSRPA

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_1651 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000131061	1 retrocopy	retro_hsap_3057,
Gorilla gorilla	ENSGGOG00000015775	1 retrocopy	retro_ggor_2100,
Nomascus leucogenys	ENSNLEG00000010013	1 retrocopy	retro_nleu_1651 ,
Pan troglodytes	ENSPTRG00000013406	1 retrocopy	retro_ptro_1984,