RetrogeneDB ID: retro_nleu_65

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397315.1:13160099..13161461(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000018821
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSNLEG00000016120
• Aliases: None
• Description: None

Sequence

>retro_nleu_65
ATGGCTACGCGGGTGCTGAGCATGAGCGCCCGCCTAGGACCCGTGCCCCAGCCGCCGGCGCCGCAGGACGAGCCAGTGGT
CGCGCAGCTCAAGCCGGTGCTGGGCGCCGCGAATCCGGCCCGCGACGCGGTGCTCTTCCCCGGCGAGGAGCTGAAGCACG
CGCACCTCCGCCTGCGCAGGCCCCGCCCGCGCCCGCGCAGGCCCCAGCCGCCCGCCGCCCGCCCGCGGCTGCCTCCAGAG
GAGCTGGTCCAGACAAGATGTGAAATGGAGAAGTATCTGACACCTCAGCTTCCTCCAGTTCCTACAATTCCAGAGCATAA
AAAGTATAGACGAGACAGTGCCTCAGTCGTAGACCAGTTCTTCACTGACACTGAAGGGTTACCTTACAGTATCAACATGA
ACGTCTTCCTCCCTGACATCACTCACCTGAGAACTGGCCTCTACAAATCCCAGAGACCGTGCGTAACACACATCAAGACA
GAACCTGTTGCCATTTTCAGCCACCAGAGTGAAACGACTGCCCCTCCTCCGGCCCCGACCCAGGCCCTCCCTGAGTTCAC
CAGTATATTCAGCTCACACCAGACCGCAGCTCCAGAGGTGAACAATATTTTCATCAAACAAGACCTTCCTACACCAGATC
TTCATCTTTCTGTCCGTCCACAGCAGGGCCACCTGTACCAGCTACTGAATACACCGGATCTAGATATGCCCAGTTCTACA
AACCAGACAGCAGCAATGGACACTCTAAATGTTTCTATGTCAGCTGCCATGGCAGGCCTTAACACACACACCTCTGCTGT
TCCGCTGACTGCAGTGAAACAATTCCAGGGCATGCCCCCTTGCACATACACAATGCCAGGTCAGTTTCTTCCACAACAGG
CCACTTACTTTCCCCCGTCACCACCAAGCTCAGAGCCTGGAAGTCCAGATACACAAGCAGAGATGCTCCAGAATTTAACC
CCACCTCCATCCTATGCTGCTACAATTGCTTCTAAACTGGCAATTCACAATCCAAATTTACCCACCACCCTGCCAGTTAA
CTCACAAAACATCCAACCTGTCAGATACAACAGAAGGAGTAACCCCGATTTGGAGAAACGACGCATCCACTACTGCGATT
ACCCTGGTTGCACAAAAGTTTATACCAAGTCTTCTCATTTAAAAGCTCACCTGAGGACTCACACTGGTGAAAAGCCATAC
AAGTGTACCTGGGAAGGCTGCGACTGGAGGTTCGCGCGATCGGATGAGCTGACCCGCCACTACCGGAAGCACACAGGCGC
CAAGCCCTTCCAGTGCGGGGTGTGCAACCGCAGCTTCTCGCGCTCTGACCACCTGGCCCTGCATATGAAGAGGCACCAGA
AC

Alignment

ORF - retro_nleu_65 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.61 %
• Parental protein coverage: 85.65 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PEMVNQTRCEMEKYLTPQLPPVPIIPEHKKYRRDSASVVDQFFTDTEGLPYSINMNVFLPDITHLRTGLY
          PE...QTRCEMEKYLTPQLPPVP.IPEHKKYRRDSASVVDQFFTDTEGLPYSINMNVFLPDITHLRTGLY
Retrocopy PEELVQTRCEMEKYLTPQLPPVPTIPEHKKYRRDSASVVDQFFTDTEGLPYSINMNVFLPDITHLRTGLY

Parental  KSQRPCVTHIKTEPVAIFSHQSETTAPPPAPTQALPEFTSIFSSHQTAAPEVNNIFIKQELPTPDLHLSV
          KSQRPCVTHIKTEPVAIFSHQSETTAPPPAPTQALPEFTSIFSSHQTAAPEVNNIFIKQ.LPTPDLHLSV
Retrocopy KSQRPCVTHIKTEPVAIFSHQSETTAPPPAPTQALPEFTSIFSSHQTAAPEVNNIFIKQDLPTPDLHLSV

Parental  PPQQGHLYQLLNTPDLDMPSSTNQTAAMDTLNVSMSAAMAGLNTHTSAVPQTAVKQFQGMPPCTYTMPSQ
          .PQQGHLYQLLNTPDLDMPSSTNQTAAMDTLNVSMSAAMAGLNTHTSAVP.TAVKQFQGMPPCTYTMP.Q
Retrocopy RPQQGHLYQLLNTPDLDMPSSTNQTAAMDTLNVSMSAAMAGLNTHTSAVPLTAVKQFQGMPPCTYTMPGQ

Parental  FLPQQATYFPPSPPSSEPGSPDRQAEMLQNLTPPPSYAATIASKLAIHNPNLPTTLPVNSQNIQPVRYNR
          FLPQQATYFPPSPPSSEPGSPD.QAEMLQNLTPPPSYAATIASKLAIHNPNLPTTLPVNSQNIQPVRYNR
Retrocopy FLPQQATYFPPSPPSSEPGSPDTQAEMLQNLTPPPSYAATIASKLAIHNPNLPTTLPVNSQNIQPVRYNR

Parental  RSNPDLEKRRIHYCDYPGCTKVYTKSSHLKAHLRTHTGEKPYKCTWEGCDWRFARSDELTRHYRKHTGAK
          RSNPDLEKRRIHYCDYPGCTKVYTKSSHLKAHLRTHTGEKPYKCTWEGCDWRFARSDELTRHYRKHTGAK
Retrocopy RSNPDLEKRRIHYCDYPGCTKVYTKSSHLKAHLRTHTGEKPYKCTWEGCDWRFARSDELTRHYRKHTGAK

Parental  PFQCGVCNRSFSRSDHLALHMKRHQN
          PFQCGVCNRSFSRSDHLALHMKRHQN
Retrocopy PFQCGVCNRSFSRSDHLALHMKRHQN

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_65 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 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000009798	1 retrocopy	retro_chof_1208,
Callithrix jacchus	ENSCJAG00000021146	1 retrocopy	retro_cjac_3188,
Nomascus leucogenys	ENSNLEG00000007123	1 retrocopy	retro_nleu_620,
Nomascus leucogenys	ENSNLEG00000016120	1 retrocopy	retro_nleu_65 ,
Nomascus leucogenys	ENSNLEG00000017046	1 retrocopy	retro_nleu_2431,
Pan troglodytes	ENSPTRG00000039565	2 retrocopies	retro_ptro_111, retro_ptro_2968,