RetrogeneDB ID: retro_ogar_239

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873620.1:6923859..6925053(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000006595
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: NKAP
• Ensembl ID: ENSOGAG00000001004
• Aliases: None
• Description: NFKB activating protein [Source:HGNC Symbol;Acc:29873]

Sequence

>retro_ogar_239
ATGGCCCCAGTATCTCGGCCCCGTTATTCCGACGACACCCTGGACTCCCGAAAACCACCAGGTAGCTCTTCGGGGAGCCC
AACATCCACTCAGTCCAGACGCTCCCCCTGGTATGGCCGTTCACGCTCTCACTCCCGCAGCCGTGAGGGCCTCAGGCCTC
CGTGGAGTGAGTCGAGCGTCGGTGCTTCCTACCCCCTCAGCCGCTCAGAGTCTCGAGAGCCGCCCCCAGGGGTCCGCAAC
TATACCTCCTCTTCCCTCTACTATGGCGAATACCGCTACCATCACCACCACAGTCCGGGCAACCGGCAGTGGGCGGAAGA
CTACGAGAAGGAGAAGGAAGAGAGCTACCGCCAGAGGCGGCTGAAGGAGAGGGAGAGGATTGGGGAATTGGGAGCGCCTG
AGGTGTGGGGGTTGTCTCCAAAGTTTCCTGAGCCAGATTCTGACGAACATACCCCAGTTGAAGATGAAGTGGTAAAAAAT
GAGAAAAGCAGTTCCGATTCTAGCGCTGAAGAAAAAAAGAAAAAGAAGATCAGTCGTTCGAAAAAGAAGAAAAGAAAGAG
TAAGTCATCTAAGAGAAAGCATAAGAAGTATTCTGAAAGTAGTGACAGTGATTCAGACTCTGACATGAATTCTAGCTCTG
AAGATGATAAAAAGAGAGTTAAAAAAGCCAAGAAGAAAGAGAAGAAAAAGAAACACAAAGCAAAAAAGCCCAAGAAAAAG
AAGAAGAAGACGACTAAAAAAGAATCCAGTGATTCAGAAGAGTTGCCAGAAGATACCTGGATTGAGCAATCAAAAACTGC
AGATACCATGAATTTAATAGGTCCAGAAGCACCTATAATACATACCTCTCAAGATGAGAAGCCTTTGAACTATGGACATG
CTCTACTCCCAGGTGAAGGTGCAGCTATGGCTGAGTATGTAAAGGCTGGAAAACGTATCCCACGGAGAGGTGAAATTGGA
TTGACAAGTGAAGAGATCGCTGCATTTGAATCCTCAGGTTATGTTATGAGTGGCAGCAGGCATCGCAGAATGGAGGCTGT
GAGGCTGCGTAAGGAGAACCAGATCTATAGTGCTGATGAGAAGCGAGCCCTTGCGTCCTTCAACCAAGAAGAGAGACGAA
AGAGAGAAAACAAGATTTTAGCCAGTTTTCGAGAGATGGTGTACAGAAAGACAAAAGGGAAAGATGACAAGTAA

Alignment

ORF - retro_ogar_239 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 67.16 %
• Parental protein coverage: 81.97 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SRSRSRERPSALRGTPFASVSSAYYVTYSRPYGSDKPWPSLLDKEREESLRQKRLSERERIGELGAPEVW
          SRS.SRE.P...R.....S.....Y............W.....KE.EES.RQ.RL.ERERIGELGAPEVW
Retrocopy SRSESREPPPGVRNYTSSSLYYGEYRYHHHHSPGNRQWAEDYEKEKEESYRQRRLKERERIGELGAPEVW

Parental  GLSPKNPEPDSDEHTPVEDEEPKKSTSSASTSEEDKKKKKKSSHSKERSKKKRKKKTSKRKHKKYSEDSD
          GLSPK.PEPDSDEHTPVEDE..K...SS...S.E.KKKKK.S.......KKKRK.K.SKRKHKKYSE.S.
Retrocopy GLSPKFPEPDSDEHTPVEDEVVKNEKSSSDSSAEEKKKKKIS----RSKKKKRKSKSSKRKHKKYSESS-

Parental  SDSDSETDSSDEDTKRRAKKAKKKERKKKHRSKKYKKKKSKKSRKESSDSSSKDSQEEFLENPWKDRSKT
          .DSDS....SD........K...K..KKK...KK.K.KK.KK..K......S.DS.EE..E..W...SKT
Retrocopy -DSDSD---SDMNSSSEDDKKRVKKAKKKEKKKKHKAKKPKKKKKKTTKKESSDS-EELPEDTWIEQSKT

Parental  EEPSDLIGPEAPKTLASQDDKPLNYGHALLPGEGAAMAEYVKAGKRIPRRGEIGLTSEEIASFECSGYVM
          .....LIGPEAP....SQD.KPLNYGHALLPGEGAAMAEYVKAGKRIPRRGEIGLTSEEIA.FE.SGYVM
Retrocopy ADTMNLIGPEAPIIHTSQDEKPLNYGHALLPGEGAAMAEYVKAGKRIPRRGEIGLTSEEIAAFESSGYVM

Parental  SGSRHRRMEAVRLRKENQIYSADEKRALASFNQEERRKRENKILASFREMVYRKTKGKDDK
          SGSRHRRMEAVRLRKENQIYSADEKRALASFNQEERRKRENKILASFREMVYRKTKGKDDK
Retrocopy SGSRHRRMEAVRLRKENQIYSADEKRALASFNQEERRKRENKILASFREMVYRKTKGKDDK

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_239 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 15 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000018433	1 retrocopy	retro_cfam_172,
Dasypus novemcinctus	ENSDNOG00000000072	1 retrocopy	retro_dnov_50,
Echinops telfairi	ENSETEG00000001007	1 retrocopy	retro_etel_1882,
Felis catus	ENSFCAG00000004392	1 retrocopy	retro_fcat_10,
Homo sapiens	ENSG00000101882	1 retrocopy	retro_hsap_15,
Loxodonta africana	ENSLAFG00000002962	1 retrocopy	retro_lafr_37,
Macaca mulatta	ENSMMUG00000012382	1 retrocopy	retro_mmul_121,
Mus musculus	ENSMUSG00000016409	1 retrocopy	retro_mmus_279,
Nomascus leucogenys	ENSNLEG00000014922	1 retrocopy	retro_nleu_88,
Otolemur garnettii	ENSOGAG00000001004	1 retrocopy	retro_ogar_239 ,
Pongo abelii	ENSPPYG00000020679	1 retrocopy	retro_pabe_198,
Pan troglodytes	ENSPTRG00000022233	1 retrocopy	retro_ptro_117,
Rattus norvegicus	ENSRNOG00000031169	1 retrocopy	retro_rnor_93,
Sus scrofa	ENSSSCG00000012613	1 retrocopy	retro_sscr_13,
Ictidomys tridecemlineatus	ENSSTOG00000001134	1 retrocopy	retro_itri_73,