RetrogeneDB ID: retro_ogar_2910

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873678.1:3215675..3216958(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZC3H14
• Ensembl ID: ENSOGAG00000005373
• Aliases: None
• Description: zinc finger CCCH-type containing 14 [Source:HGNC Symbol;Acc:20509]

Sequence

>retro_ogar_2910
AATCATGATGGAGAAGAGGAGGAAGAAGATGATGATTATGAGTCCTGAAAAGGCGGCATCTCCAGCAGTGTGTCTGTGTC
AGCAAAGCCTGAAAGGAGATCCTCCCTTCTACCTTTTAAACAAGCCAACAAGAATCTGATTTTGAAGGCTATATCTGAAG
CTCAAGAATCTGTAACAAAAACAACTAACTATTCTTCAGTCCCACAGAAACAGACACTTCAGTTGCTCCCAAAACTCAAA
CTTCTCAGGAAGATTTGTTAGCAGAAGTGGTCCAGAGCACAAGTAGGACCCCTAGAATAAGTCCCCCCATTAAAGAAGAA
GAAAGAAAAGGAGATAATATAGAAAAAAATCAAGGAACTCAACAGAGGCAATTATTATTCTGACTGTAAATTGACCCAGT
AATGGCAAAAACTCTGCAGATCAGTCAAGATTACTATAACATGCAATCCATGGTCCATGCAGACACAAGATCATTTATTC
TGAAGAATCCAAAGCTGTCTGAGGAAATAGTAGTGACAACAACCCAAGAGTTGGGGATGAAGACTGCAGATACCCTTCGG
GTACTTTCAGCACACCTTATACTTACACGCAATCTTGTACAACCAGATAAACCTGGAAGTCCCAAGTTTAAAGTGATGCT
GGATGGTGTCCCCAGCCCCCCAGGATACATGTCAGATCAAGAGAAGGACATGTGCTTTAAAGGAATGAAAGCCATAAACC
AAACTGCAGCCTGAAACAAGAGACTCAGAGGTCTCCTCCACCCACAGCAGCTACAGTTGCTGAGCAGGCAGCTTGAGAAC
CCAAATGGTAGCTTTTCCAACAATGAGATGAGTGAACCAAGTGTGACACAGAAACCAGAAAAGCTTTTGGAACACTACAA
CTACTGGCCCACTTGTAAAAATGGTGATGAGTGTGCTTACCATCATTCCATATCACCTTGAAAGGCCTTTCCCAATTGTA
AATTTGCTGAAAAATGTTTGTTTGTTCATCCAAATTGTAAATATAATGCAAAATGTATTAAAACAGATTGTCCTTTTACT
CATATGAGTAGAATAATTCCAGTACCACCTCCAAAACCAGCAGTGACAAAATCACTAACATCCTCTAATAGTCAGCTCTG
CCATTACTTCCCAGCATGTGAGAAAATGGAATATCCCTTCTATCATCCTAAACACTCCAATTTTACCACTCAGTATACAA
GACTAGACTGCACATTTTACCATCATACCATTACTGTACCACCACAACATGCCTTGAAATGGATTCAACCTCAAACCAGT
GAA

Alignment

ORF - retro_ogar_2910 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.68 %
• Parental protein coverage: 58.15 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  NHDGEEEEEDDDYGSRTGGVSSSVSVPAKPERRPSLPPSKQANKNLILKAISEAQESVTKTTNYSTVPQK
          NHDGEEEEEDDDY.S..GG.SSSVSV.AKPERR.SL.P.KQANKNLILKAISEAQESVTKTTNYS.VPQK
Retrocopy NHDGEEEEEDDDYES*KGGISSSVSVSAKPERRSSLLPFKQANKNLILKAISEAQESVTKTTNYSSVPQK

Parental  QTLP-VAPRTRTSQEDLLAEVVQGQSRTPRISPPIKEEETKGDNIEKNQGTQQRQLLSRLQIDPVMAETL
          QTL..VAP.T.TSQEDLLAEVVQ..SRTPRISPPIKEEE.KGDNIEKNQGTQQRQLL..L.IDPVMA.TL
Retrocopy QTLQ<VAPKTQTSQEDLLAEVVQSTSRTPRISPPIKEEERKGDNIEKNQGTQQRQLLF*L*IDPVMAKTL

Parental  QISQDYYDMESMVHADTRSFILKKPKLSEEVVVTPTQESGMKTADTLRVLSGHLIHTRDLVQPDKPASPK
          QISQDYY.M.SMVHADTRSFILK.PKLSEE.VVT.TQE.GMKTADTLRVLS.HLI.TR.LVQPDKP.SPK
Retrocopy QISQDYYNMQSMVHADTRSFILKNPKLSEEIVVTTTQELGMKTADTLRVLSAHLILTRNLVQPDKPGSPK

Parental  FIVTLDGVPSPPGYMSDQEEDMCFEGMKPVNQTAASNKGLRGLLHPQQLQLLSRQLEDPNGSFSNAEISE
          F.V.LDGVPSPPGYMSDQE.DMCF.GMK..NQTAA.NK.LRGLLHPQQLQLLSRQLE.PNGSFSN.E.SE
Retrocopy FKVMLDGVPSPPGYMSDQEKDMCFKGMKAINQTAA*NKRLRGLLHPQQLQLLSRQLENPNGSFSNNEMSE

Parental  LSVTQKPEKLLERCKYWPACKNGDECAYHHPISPCKAFPNCKFAEKCLFVHPNCKYDAKCTKPDCPFTHM
          .SVTQKPEKLLE...YWP.CKNGDECAYHH.ISP.KAFPNCKFAEKCLFVHPNCKY.AKC.K.DCPFTHM
Retrocopy PSVTQKPEKLLEHYNYWPTCKNGDECAYHHSISP*KAFPNCKFAEKCLFVHPNCKYNAKCIKTDCPFTHM

Parental  SRRIPVLPPKPAVTAPPTPSSSQLCRYFPACKKMECPFYHPKHCRFNTQCTRPDCTFYHPTITVPPRHAL
          SR.IPV.PPKPAVT...T.S.SQLC.YFPAC.KME.PFYHPKH..F.TQ.TR.DCTFYH.TITVPP.HAL
Retrocopy SRIIPVPPPKPAVTKSLTSSNSQLCHYFPACEKMEYPFYHPKHSNFTTQYTRLDCTFYHHTITVPPQHAL

Parental  KWIRPQTSK
          KWI.PQTS.
Retrocopy KWIQPQTSE

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_2910 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000017345	1 retrocopy	retro_cjac_1429,
Mus musculus	ENSMUSG00000021012	1 retrocopy	retro_mmus_2181,
Otolemur garnettii	ENSOGAG00000005373	1 retrocopy	retro_ogar_2910 ,