RetrogeneDB ID: retro_nleu_1636

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397302.1:14338526..14339648(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000008598
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: BIN2
• Ensembl ID: ENSNLEG00000017774
• Aliases: None
• Description: None

Sequence

>retro_nleu_1636
CTACTAGAGGAGTTGCCTATTCTTTATGATAGTCATATTGGCTGCTATGTGACCATCTTCCAAAACATTTCCAACTTGAT
GGATGTCTTCTACAGGGAAATAAGCAAGCTGAACCACAATCTCTCCGAGGTGATGAGCAAACTGGAGAAGCAACATTCCA
GTAAAGTCTTTGTGGTGAAGGGACTATCAAGCAGCAGCGGGCGCTCTTTAGTCATTTCTCCCCCAGTTCGAACATCTACA
GTCTCCAGTCCTCTTACCTCACCTACTAGTTCCTCTACACTTTCCTAGAAGAGTAAGAGTGAATCTGTCTCAGGAACTGA
AGATCTGGCACCTGAGGCAGCCCAGGGGGAAGACAATTCTGAGATCAAGGAGCTCTTAGAAGATGAGGAAATAGAGAAGG
AAGAATCTGAAGCAAGCTCCTCTGAGGAAGAAGAGCCTCTACCAACCTGCAACGGCCCCTCTCAGGCCCAGCCCTCTCCT
ATCATTGAGAGTGCCAAGTCCCAGGAGGAAGTTCTCCCCAGCTCCCCTGCTCTATCACCAGGTGGAGCCCTAAGCCCTTC
AGGACACCCTTCATCATCTGCCGCAGAAGTAGTCCTCCGAACCCGCACCGCAGGTGAAGGATCTGAACAACCAAAGAAGA
GAGCCTCTATCCAGAGGACCTCAGCACCCCCTAGTAGGCCTCCTCCACCCAGAGCCACTGCAAGCCCCAGGCCCTCCTCA
GGGAACACACCCTCCAGCCCTCCAGCCTCTGGAGGGGGTTCACCCACCAGCCCTAGGGCCTCCTTGGGGACTGGGACTCC
AAGTCCTAGGACCTCCCTAGAGGTCTCTCCTAATCCAGAACCACCAGAGAAGCCAGTAAGAACTCCTGAGGCCAAAGAAA
ATGAAAACATCCACAATCAGAACCTCGAACAACTCTGTACTTCCCCCACCTTAATGACATCTCAGATTGCTTCAGAGCCT
GGAGAGGCAAAGATGGAAGACAAGGAAAAGGATAATAAGCTTGTCTCAGCTGACTCCTCGGAGGGCCAAGACGAGCTGAA
AGTCTCCACAGTACCAGACAAGAGCAACCTCACAGCACCTGAACCTCAAGAAGAGGTATCTACCAGTGAAAATGCACAAC
TC

Alignment

ORF - retro_nleu_1636 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.33 %
• Parental protein coverage: 66.31 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LLEELPILYNSRIGCYVTIFQNISNLRDVFYREMSKLNHNLYEVMSKLEKQHSNKVFVVKGLSSSR-RSL
          LLEELPILY.S.IGCYVTIFQNISNL.DVFYRE.SKLNHNL.EVMSKLEKQHS.KVFVVKGLSSS..RSL
Retrocopy LLEELPILYDSHIGCYVTIFQNISNLMDVFYREISKLNHNLSEVMSKLEKQHSSKVFVVKGLSSSSGRSL

Parental  VISPPVRTATVSSPLTSPTSPSTLSLKSESESVSATEDLAPDVAQGEDNSEIKELLEEEEIEKEGSEASS
          VISPPVRT.TVSSPLTSPTS.STLS.KS.SESVS.TEDLAP..AQGEDNSEIKELLE.EEIEKE.SEASS
Retrocopy VISPPVRTSTVSSPLTSPTSSSTLS*KSKSESVSGTEDLAPEAAQGEDNSEIKELLEDEEIEKEESEASS

Parental  SEEDEPLPACNGPAQAQPSPTTESAKSQEEVLPSSPAPSPGGALSPSGQPSSSATEVVLRTRTASEGSEQ
          SEE.EPLP.CNGP.QAQPSP..ESAKSQEEVLPSSPA.SPGGALSPSG.PSSSA.EVVLRTRTA.EGSEQ
Retrocopy SEEEEPLPTCNGPSQAQPSPIIESAKSQEEVLPSSPALSPGGALSPSGHPSSSAAEVVLRTRTAGEGSEQ

Parental  PKKRASIQRTSAPPSRPPPPRATASPRPSSGNIPSSPTASGGGSPTSPRASLGTGTPSPRTSLEVSPNPE
          PKKRASIQRTSAPPSRPPPPRATASPRPSSGN.PSSP.ASGGGSPTSPRASLGTGTPSPRTSLEVSPNPE
Retrocopy PKKRASIQRTSAPPSRPPPPRATASPRPSSGNTPSSPPASGGGSPTSPRASLGTGTPSPRTSLEVSPNPE

Parental  PPEKPVRTPEAKGNENIHNQNPEELCTSPTLMTSQVRAEPGQHRKNPSLKKIQKLAGCISSSGQDQLQVS
          PPEKPVRTPEAK.NENIHNQN.E.LCTSPTLMTSQ...EPG...K.....K..KL....SS.GQD.L.VS
Retrocopy PPEKPVRTPEAKENENIHNQNLEQLCTSPTLMTSQIASEPGE-AKMEDKEKDNKLVSADSSEGQDELKVS

Parental  TVPENNNLTAPEPQEEVSTSENPQL
          TVP...NLTAPEPQEEVSTSEN.QL
Retrocopy TVPDKSNLTAPEPQEEVSTSENAQL

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_1636 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 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000110934	2 retrocopies	retro_hsap_2952, retro_hsap_3192,
Gorilla gorilla	ENSGGOG00000009423	1 retrocopy	retro_ggor_1336,
Loxodonta africana	ENSLAFG00000002387	1 retrocopy	retro_lafr_1163,
Nomascus leucogenys	ENSNLEG00000017774	1 retrocopy	retro_nleu_1636 ,
Pongo abelii	ENSPPYG00000004526	2 retrocopies	retro_pabe_2448, retro_pabe_2648,
Pan troglodytes	ENSPTRG00000004954	2 retrocopies	retro_ptro_2049, retro_ptro_2251,