RetrogeneDB ID: retro_ogar_2888

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873676.1:1595224..1596955(-)
• Located in intron of: ENSOGAG00000013639

Retrocopy information

• Ensembl ID: ENSOGAG00000027728
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: KIAA1841
• Ensembl ID: ENSOGAG00000013736
• Aliases: None
• Description: KIAA1841 [Source:HGNC Symbol;Acc:29387]

Sequence

>retro_ogar_2888
ATGAGTCGTGGATATTCTGAAAATAACAATTTCGTGAATAATCAAGTGGTATTGGATATGATCCTTTATCTATTACTCGG
AATCCCTCAAACCATCAACTGGGAAACTGTAGCAAGGCTTGTGCCAGGATTAACACCCAAAGAGTGTGCCAAAAGATTTG
ATGAACTGAAGAGCAGTGGAAACTCACCCGTTGACAACCAGTATAATCCCCTAATGGCTGCTAGAGAGAGTCCTGTGGAA
TCTTTAGCCATGTATATCAAATCATCACTTCTTGACACACAGGGAGAATTTTAGGAGACTCCAGTTGGTCAGGATGCAGT
TTCTAAAACAGGAAGACATAGTATAGCTTCCACAAGGAATTGTTCTTCAGAAAGTGAAAATTGTACTACTCATAGTGGTG
GAGAAAACACTGAAGAATCTGAAGGGCCAAACATGGTGATCCATGTATGTGCTGAAGCAAAAAACTTGAAAGGAGATTTT
ATTTGCCCACGAGATCTTTTGCTATCAGAAATGAAGTACTTTGCTGAATATTTATCTATGGATGCCGAGCGCTGGGAAGA
AGTGGACATTTCAGTTCATTGTGACGTTCATATTTTCAACTGGTTGATAAAATATGTTAAAAGGAACACTAAGGAGAATA
AAGATTGTGAGATACCCACTTTAGAGCCAGGAAATGTCATTTCAATTCTTATTTCTTCAGAGTCCTTGAAAATGGATTCA
TTAATTGAACAGTGTATTCAGTATTGCCACAAAAATATGAATGCCATAGTAGCTACCCCTTGCAACATGAACTGTATTAA
TGCAAATCTTCTTACACATATAGCTGATCTGTTCACACACAATGAAATTGATGATCTAAAGGAGAAAAGAGATAAGTTTA
GAAGTAAACTTTTTTGTAAGAAGATTGAGAGACTGTTTGATCCTGAGTACTTGAATCCAGATTCTCGGAGTAACGCAGCA
ACATTGTACAGATGCTGTTTGTGTAAGAAACTTCTAACAAAAGAAACAGAAAGAAGAATCCCTTGTATTCCTGGAAAAAT
CAATGTGGATCAACATGGAAATATTATCTATATTCACATAAGAGATAAGACTTGGGATGTTCATGAGTATTTGAATAGTC
TTTTTGAAGAATTAAAATCTTGGAGAGATGTATATTGGCATTTCTGGGGAACGATCAACTGGCTGACTTGTTCAAGGTGC
TGTCAGGCATTTCTCTGTATTGAATTTTCACATTATCAGTTCCACCCAGAAACAATCGTTTATCCCATTGCAGCAGATCC
ATCAAGCGCTGTTGGCACAGGGGTTTACCCCTGCTGTAGCCAGAAGGTTCTTCAGTTTGACCCCACTCAGCTTACAAAGG
GCTGTAAAGTGAGAGACCACGTGGTTGCACTTTGTGATCAAGGTGAAGGTTGAGAGTTGCCATCCTGTACCACTACTACA
ATACTGGATGATCTGCAGAAGCACAAAGATGTTATTGCTGTGCCCTTTTCAAAAGATACCGTTAGTGATCTTGGCGTTGA
TCCCTGTGATGAAAAGGGTCTAGAATGTGATGTTTTACTGGAGCCAAATACACCATGGGGTCCCCAAACTGGAGAGCTCA
ATGCTTTCTTGTCCCTGAAAAACTGGACTCCAGATAAAACAATAGTCATTATTTTCAGAAGAAGAAGAATATACCACTGG
ATCTGAGGTGAAGATGAAGTAGGAGATGAAGAAGAAGTATCCAAGAAACAA

Alignment

ORF - retro_ogar_2888 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.5 %
• Parental protein coverage: 78.57 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MSRGYSENNNFVNNNNQMVLDMILYPLLGIPQTINWETVARLVPGLTPKECAKRFDELKSSGNSPVDNQY
          MSRGYSENNNFVNN..Q.VLDMILY.LLGIPQTINWETVARLVPGLTPKECAKRFDELKSSGNSPVDNQY
Retrocopy MSRGYSENNNFVNN--QVVLDMILYLLLGIPQTINWETVARLVPGLTPKECAKRFDELKSSGNSPVDNQY

Parental  NALMAAGESPVESLATYIKSSLLDTQGEFQETPVGQDAVSKTGRHSIASTRNCSSESENCTTRNGGEKTE
          N.LMAA.ESPVESLA.YIKSSLLDTQGEF.ETPVGQDAVSKTGRHSIASTRNCSSESENCTT..GGE.TE
Retrocopy NPLMAARESPVESLAMYIKSSLLDTQGEF*ETPVGQDAVSKTGRHSIASTRNCSSESENCTTHSGGENTE

Parental  ESEGPNMVIHVCDEAKNLKEDFICPRDLLISEMKYFAEYLSMDAQRWEEVDISVHCDVHIFNWLIKYVKR
          ESEGPNMVIHVC.EAKNLK.DFICPRDLL.SEMKYFAEYLSMDA.RWEEVDISVHCDVHIFNWLIKYVKR
Retrocopy ESEGPNMVIHVCAEAKNLKGDFICPRDLLLSEMKYFAEYLSMDAERWEEVDISVHCDVHIFNWLIKYVKR

Parental  NTKENKDCEIPTLEPGNVISILISSEFLKMDSLVEQCIQYCHKNMNAIVATPCNMNCINANLLTRIADLF
          NTKENKDCEIPTLEPGNVISILISSE.LKMDSL.EQCIQYCHKNMNAIVATPCNMNCINANLLT.IADLF
Retrocopy NTKENKDCEIPTLEPGNVISILISSESLKMDSLIEQCIQYCHKNMNAIVATPCNMNCINANLLTHIADLF

Parental  THNEIDDLKDKRDKFRSKLFCKKIERLFDPEYLNPDSRSNAATLYRCCLCKKLLTKETERRIPCIPGKIN
          THNEIDDLK.KRDKFRSKLFCKKIERLFDPEYLNPDSRSNAATLYRCCLCKKLLTKETERRIPCIPGKIN
Retrocopy THNEIDDLKEKRDKFRSKLFCKKIERLFDPEYLNPDSRSNAATLYRCCLCKKLLTKETERRIPCIPGKIN

Parental  VDQHGNIIYIHIRDKTWDVHEYLNSLFEELKSWRDVYWRLWGTINWLTCSRCCQAFPCIEFSHCQFHPET
          VDQHGNIIYIHIRDKTWDVHEYLNSLFEELKSWRDVYW..WGTINWLTCSRCCQAF.CIEFSH.QFHPET
Retrocopy VDQHGNIIYIHIRDKTWDVHEYLNSLFEELKSWRDVYWHFWGTINWLTCSRCCQAFLCIEFSHYQFHPET

Parental  VVYPTAPGPSSAVGTGVYPCCSQKVLRFDPTQLTKGCKVRDHVVALCDQGEGGELPSCTTTTILDDLHKH
          .VYP.A..PSSAVGTGVYPCCSQKVL.FDPTQLTKGCKVRDHVVALCDQGEG.ELPSCTTTTILDDL.KH
Retrocopy IVYPIAADPSSAVGTGVYPCCSQKVLQFDPTQLTKGCKVRDHVVALCDQGEG*ELPSCTTTTILDDLQKH

Parental  KDVIAVPFSKDTVRVWGLGACGSNITKIIFLHVFHLSFGIKTGKEMVNYFLSLKNWTLQLKQQSLF-SEE
          KDVIAVPFSKDTV...G...C.........L.......G..TG....N.FLSLKNWT........F..EE
Retrocopy KDVIAVPFSKDTVSDLGVDPCDEKGLECDVLLEPNTPWGPQTGE--LNAFLSLKNWTPDKTIVIIF>EEE

Parental  EEYTTGSEV-TEDEVGDEEEVSKKQ
          E.YTTGSEV........EE.VSKKQ
Retrocopy E-YTTGSEV<EDEVGDEEE-VSKKQ

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_2888 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000013736	1 retrocopy	retro_ogar_2888 ,