RetrogeneDB ID: retro_ogar_767

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873527.1:30258243..30259419(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CDC73
• Ensembl ID: ENSOGAG00000000351
• Aliases: None
• Description: cell division cycle 73 [Source:HGNC Symbol;Acc:16783]

Sequence

>retro_ogar_767
CAAATTGAGGATAAAGAGTGTGTGAGTCTTGATAAAGAGAGATTGGCTGCTCATTTGGAGGGTCACAAAGAAGGGATTGT
ACAGACTGAAAAGATTAGATCTTTGTCTAAAGCTATGTGAGTGGAAAAAATTGATGCAATCAAAGCCAAAATTCTGGCTA
AGAAAAGATCTACTATCAAGAATGATCTAGATGATGATATAACTGTCCTGAAACAGAGGAGTTTTTTTGATGCTGAGGTA
GATGTGACCCAAGATATGGTTAGCAGAGAGGGACTATGGAGGACACAGACAACAATCTTATATAGAACAGGAAATAATTT
TTCCAAGAATATATTTGCAATTCTTCAATCTGTAAAAGCCAGAGAAGAAGGACATGCACCTGAACAGCAATGGGCCCCAA
ATGCAGCACTGTGGATCCGATGTTGTGCACTCAACAGCCTATCCCAGCTGCCTATAACAGATATGACCAGGAAAAGTTCA
AAGGAAAAGAAGAAGTGAAGAGCTTCAAAATTGACAGTATGTGCACATACCATGGTATGACACTGAAATCTGTAATGGAG
GATGCGTCTGCTTGTAAGACTCAGATCTCTGCAGCCCAACCCATACCAAGACCAGTTTCTCAAGCAAGACCTCCCCCAAA
TCAGAAGAAAGGATCACAAACATCTCTTATCATAATTGCTGCAGCTACTACCTCTTTAATAGCCATGCTTAATGCAAAAG
ACTTTCTATAGGACCTGAAATTTGTCCTATCAGATGAAAAGAAGAAACAATGTTGTCAACAACAAAAATGAAATTCTAAT
ACACAGAAGAAAGACCAAATGCAACCAGGGGGCACTGCAAATAGTGTCACAGTACCTTATAGAGTAGTAACCAGCCCCTT
AAACCTATGCCTCAAGACTGGGACCAGTTGTAGCAGTTTTTGTGCAAGGTCCTGTGTGGCAGTTCAAAGATTGGCCATGG
CTTTTGCCTGATGGATCACCAGTTCACATATTTGCTAAAATTAAAGCCTTCCATCTCAAGTATGATGAAGTTTGTCTAGA
TCCCAATGTTCAGAAATGGGATGTAACAGTATTATAACTCAGCTATCACAAACATTATTTGGGCACACCAGTTTTCTTAT
GCTTTTGGGAAACATTAGACAGGTACATGGTAAAGTGTAAATCCCACTTGAGATTC

Alignment

ORF - retro_ogar_767 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.91 %
• Parental protein coverage: 74.01 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  RIEDEECVRLDKERLAARLEGHKEGIVQTEQIRSLSEAMSVEKIAAIKAKIMAKKRSTIKTDLDDDITAL
          .IED.ECV.LDKERLAA.LEGHKEGIVQTE.IRSLS.AM.VEKI.AIKAKI.AKKRSTIK.DLDDDIT.L
Retrocopy QIEDKECVSLDKERLAAHLEGHKEGIVQTEKIRSLSKAM*VEKIDAIKAKILAKKRSTIKNDLDDDITVL

Parental  KQRSFVDAEVDVTRDIVSRERVWRTRTTILQSTGKNFSKNIFAILQSVKAREEGRAPEQRPAPNAA-PVD
          KQRSF.DAEVDVT.D.VSRE..WRT.TTIL..TG.NFSKNIFAILQSVKAREEG.APEQ..APNAA..VD
Retrocopy KQRSFFDAEVDVTQDMVSREGLWRTQTTILYRTGNNFSKNIFAILQSVKAREEGHAPEQQWAPNAA<TVD

Parental  PTLRTKQPIPAAYNRYDQERFKGKEETEGFKIDTMGTYHGMTLKSVTEGASARKTQTPAAQPVPRPVSQA
          P.L.T.QPIPAAYNRYDQE.FKGKEE...FKID.M.TYHGMTLKSV.E.ASA.KTQ..AAQP.PRPVSQA
Retrocopy PMLCTQQPIPAAYNRYDQEKFKGKEEVKSFKIDSMCTYHGMTLKSVMEDASACKTQISAAQPIPRPVSQA

Parental  RPPPNQKKGSRTPIIIIPAATTSLITMLNAKDLLQDLKFVPSDEKKKQGCQRE-NETLIQRR-KDQMQPG
          RPPPNQKKGS.T..III.AATTSLI.MLNAKD.L.DLKFV.SDEKKKQ.CQ...NE.LI.RR.KDQMQPG
Retrocopy RPPPNQKKGSQTSLIIIAAATTSLIAMLNAKDFL*DLKFVLSDEKKKQCCQQQ>NEILIHRR<KDQMQPG

Parental  GTAISVTVPYRVV-DQPLKLMPQDWDR-VVAVFVQGPAWQFKGWPWLLPDGSPVDIFAKIKAFHLKYDEV
          GTA.SVTVPYRVV..QPLK.MPQDWD..VVAVFVQGP.WQFK.WPWLLPDGSPV.IFAKIKAFHLKYDEV
Retrocopy GTANSVTVPYRVV<NQPLKPMPQDWDQ<VVAVFVQGPVWQFKDWPWLLPDGSPVHIFAKIKAFHLKYDEV

Parental  RLDPNVQKWDVTVLELSYHKRHLDRPVFLRFWETLDRYMVKHKSHLRF
          .LDPNVQKWDVTVL.LSYHK..L..PVFL.FWETLDRYMVK.KSHLRF
Retrocopy CLDPNVQKWDVTVL*LSYHKHYLGTPVFLCFWETLDRYMVKCKSHLRF

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_767 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 6 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000008675	2 retrocopies	retro_chof_2535, retro_chof_747,
Myotis lucifugus	ENSMLUG00000012093	2 retrocopies	retro_mluc_1439, retro_mluc_2152,
Monodelphis domestica	ENSMODG00000012222	1 retrocopy	retro_mdom_263,
Nomascus leucogenys	ENSNLEG00000018050	1 retrocopy	retro_nleu_2818,
Oryctolagus cuniculus	ENSOCUG00000016332	1 retrocopy	retro_ocun_302,
Otolemur garnettii	ENSOGAG00000000351	1 retrocopy	retro_ogar_767 ,