RetrogeneDB ID: retro_ogar_1565

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873551.1:9058107..9058899(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: YAP1
• Ensembl ID: ENSOGAG00000002885
• Aliases: None
• Description: Yes-associated protein 1 [Source:HGNC Symbol;Acc:16262]

Sequence

>retro_ogar_1565
GGTCCTCTTCCTGATGAATGGGAACAAGCCATGATTCAGGAGGGAGAAATTTACTATATAAACCGTAAGAACAAGAGCAC
CCCTTGGCTAAACCCTTGTTTTGATAAAGCTGGGAACCGGAGAATCAGTCAGAGTGCTCCAGTTAAACAGCCACCTCCCC
TGGCTCCCCAGAGCCGGCAGGGAGGCATTACAGGTGGCAGCAACTCCAACCAGCAGCGGCAGATGTGGCTGCAACAACTG
CAGATGGAGAAAGAGAGACTGGGACAACAAGAACTGCTTTGGCAGGCAATGCAGAATATCAATCCCAGCATAGCAAATTC
TCCAAAATGTCAGAAATTAGCTCTCTGTAGCCAGTGCCAACATTGGAGCAGGACGATAGGACTCAAAATCCATTGTCTTA
TCCCAGGATGTCTCAGGAACTGAGAAAAATGATAACCAGTAGCTCAGATCCTTTTCTTAATAGTGGCACCTGTCACTCTC
GAGATGAGAGCATAGACAAGTGTACTAAGCATGAACAGCTACAGTGTCCCTCAAACTTCAAATGATTTCCTCAACAGCAT
TAATGAAATAGACATAGGTGATACTGTTAACCAAAGCAGCCTGCCATCACAACAGAACCATTCCCCAGACTACCTTGAAG
CCATTCCTGGGACAAATGTGGACCTTGGGACACTGGAGGGAAATGGAATGAACATAGAAGGAGAGGAGTCGATGCCAAGT
CTGCAGGAAGCTTTGAGTTCTGACATCCTTAATGACATGGAGTCCGTTTGGGCTGCCACAACGCTAGATAAA

Alignment

ORF - retro_ogar_1565 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.89 %
• Parental protein coverage: 53.49 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  GPLPDGWEQAMTQDGEIYYINHKNKTTSWLDPRLDPRFAMNQRISQSAPVKQPPPLAPQSPQGGVMGGSN
          GPLPD.WEQAM.Q.GEIYYIN.KNK.T.WL.P..D...A.N.RISQSAPVKQPPPLAPQS.QGG..GGSN
Retrocopy GPLPDEWEQAMIQEGEIYYINRKNKSTPWLNPCFDK--AGNRRISQSAPVKQPPPLAPQSRQGGITGGSN

Parental  SNQQQQMRLQQLQMEKERLRLKQQELLRQAMRNINPSTANSPKCQELALRSQ-LPTLEQDGGTQNPVSSP
          SNQQ.QM.LQQLQMEKERL...QQELL.QAM.NINPS.ANSPKCQ.LAL.SQ..PTLEQD..TQNP.S.P
Retrocopy SNQQRQMWLQQLQMEKERLG--QQELLWQAMQNINPSIANSPKCQKLALCSQ<VPTLEQDDRTQNPLSYP

Parental  GMSQELRTMTTNSSDPFLNSGTYHSRDESTD-SGLSMSSYSVPRTPDDFLNSVDEMDTGDTINQSTLPSQ
          .MSQELR.M.T.SSDPFLNSGT.HSRDES.D.S.LSM.SYSVP.T..DFLNS..E.D.GDT.NQS.LPSQ
Retrocopy RMSQELRKMITSSSDPFLNSGTCHSRDESID>SVLSMNSYSVPQTSNDFLNSINEIDIGDTVNQSSLPSQ

Parental  QNRFPDYLEAIPGTNVDLGTLEGDGMNIEGEELMPSLQEALSSDILNDMESVLAATKLDK
          QN..PDYLEAIPGTNVDLGTLEG.GMNIEGEE.MPSLQEALSSDILNDMESV.AAT.LDK
Retrocopy QNHSPDYLEAIPGTNVDLGTLEGNGMNIEGEESMPSLQEALSSDILNDMESVWAATTLDK

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq

Otolemur garnettii was not studied using ChIP-Seq data.

EST

Otolemur garnettii was not studied using EST data.

TSS

Otolemur garnettii was not studied using FANTOM5 data.

Lab

retro_ogar_1565 was not experimentally validated.

Homology

Retrocopy orthology:

Otolemur garnettii 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000000627	1 retrocopy	retro_cjac_4112,
Homo sapiens	ENSG00000137693	1 retrocopy	retro_hsap_3531,
Otolemur garnettii	ENSOGAG00000002885	2 retrocopies	retro_ogar_1565 , retro_ogar_3345,
Pan troglodytes	ENSPTRG00000004211	1 retrocopy	retro_ptro_2399,