RetrogeneDB ID: retro_nleu_913

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397276.1:28096621..28097206(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MTCH2
• Ensembl ID: ENSNLEG00000014704
• Aliases: None
• Description: None

Sequence

>retro_nleu_913
GGACCTGGAAATGTACATAAAGAAGTCTCATCTTCCTTTGACTGAGTTATCAAGGAGACAGCTTGAGAGATGATGGCTCG
TTCTGCTGCTATCCTCATCACATATCCCTTCCATGTGATCACTCTGAGACCTGTGATACAATTCATTGGCAGAGGACCTA
AGTACTGTGGACTTTGCAACTTCATAACCGTCTTTCAGAAAGAGGGCATCCTGGGGTTTTTCCCAGGACTGGTTCCTCAC
CTCCTAGGTGACATCATTTCTTTGCGGCTGTGTAGCTCACTGGCCTACCTCATCAATACCTATGCACTGGACAGCAGGGT
TTCTACCATGAATGAAGTAGAGTTATTCTCAAGCTGTCACAAGATTTTTGCTGGCATGTTGACCTGTCCCTTTGTGCTTG
TCTCTAATCTTATGGCTGTCAACAACTGTGGTTTTGCTGGTGGATGCCCTCCTTACTCCCCAATATATACTGCATGGATA
GGTTGTTGATGCATGCTACAAAAGCAGGGAAATATAAGCCCAGGAAATAGCTTGTTTTTCCAGAAGGTCCTCTTAAGGAA
GACTTATTCATGTGATTTGAAGATG

Alignment

ORF - retro_nleu_913 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.6 %
• Parental protein coverage: 71.9 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GPGNVQKEVSSSFDHVIKETTREMIARSAATLITHPFHVITLRSMVQFIGRESKYCGLCDSIITIYREEG
          GPGNV.KEVSSSFD.VIKET..EM.ARSAA.LIT.PFHVITLR...QFIGR..KYCGLC...IT....EG
Retrocopy GPGNVHKEVSSSFD*VIKETA*EMMARSAAILITYPFHVITLRPVIQFIGRGPKYCGLC-NFITVFQKEG

Parental  ILGFFAGLVPRLLGDILSLWLCNSLAYLVNTYALDSGVSTMNEMKSYSQAVTGFFASMLTYPFVLVSNLM
          ILGFF.GLVP.LLGDI.SL.LC.SLAYL.NTYALDS.VSTMNE....S......FA.MLT.PFVLVSNLM
Retrocopy ILGFFPGLVPHLLGDIISLRLCSSLAYLINTYALDSRVSTMNEVELFS-SCHKIFAGMLTCPFVLVSNLM

Parental  AVNNCGLAGGCPPFSPIYTSWIDCWCMLQKEGNMSRGNSLFFRKVPFGKTYCYDLKM
          AVNNCG.AGGCPP.SPIYT.WI.C.CMLQK.GN.S.GNSLFF.KV...KTY..DLKM
Retrocopy AVNNCGFAGGCPPYSPIYTAWIGC*CMLQKQGNISPGNSLFFQKVLLRKTYSCDLKM

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_913 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 18 parental genes, and 31 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000018742	1 retrocopy	retro_btau_1321,
Choloepus hoffmanni	ENSCHOG00000008473	1 retrocopy	retro_chof_2162,
Callithrix jacchus	ENSCJAG00000020213	3 retrocopies	retro_cjac_1551, retro_cjac_2003, retro_cjac_3812,
Dasypus novemcinctus	ENSDNOG00000001221	1 retrocopy	retro_dnov_1867,
Homo sapiens	ENSG00000109919	2 retrocopies	retro_hsap_1041, retro_hsap_1690,
Gorilla gorilla	ENSGGOG00000008281	3 retrocopies	retro_ggor_1267, retro_ggor_3083, retro_ggor_822,
Mustela putorius furo	ENSMPUG00000003852	1 retrocopy	retro_mputfur_312,
Mus musculus	ENSMUSG00000027282	1 retrocopy	retro_mmus_2657,
Nomascus leucogenys	ENSNLEG00000010899	1 retrocopy	retro_nleu_423,
Nomascus leucogenys	ENSNLEG00000014704	2 retrocopies	retro_nleu_1335, retro_nleu_913 ,
Oryctolagus cuniculus	ENSOCUG00000006368	2 retrocopies	retro_ocun_1197, retro_ocun_983,
Otolemur garnettii	ENSOGAG00000011607	1 retrocopy	retro_ogar_2578,
Pongo abelii	ENSPPYG00000003296	3 retrocopies	retro_pabe_1392, retro_pabe_1894, retro_pabe_872,
Pan troglodytes	ENSPTRG00000003573	2 retrocopies	retro_ptro_1144, retro_ptro_710,
Pteropus vampyrus	ENSPVAG00000007348	1 retrocopy	retro_pvam_954,
Sorex araneus	ENSSARG00000001399	1 retrocopy	retro_sara_705,
Sus scrofa	ENSSSCG00000013232	3 retrocopies	retro_sscr_262, retro_sscr_279, retro_sscr_602,
Tursiops truncatus	ENSTTRG00000014169	2 retrocopies	retro_ttru_1476, retro_ttru_353,