RetrogeneDB ID: retro_ogar_3331

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873781.1:224227..226011(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000030385
• Aliases: None
• Description: None

Sequence

>retro_ogar_3331
ATGGAAGATAGCCCAATCTTGTCAAATTGGACAAATGACAACAACAAAAGATGAAGTGTGACTTTTCCTCTGAACTGTAC
AGAATATCTACATATTCAACTTTCCCTGCTGATGTTCCTGTCTCAGAAAGGAGCCTTGCTCATGCTGGTTTTTATTACGT
GGGTGAAAATGACAAGGTCAAATGCCTCTGTTACAGCCTGATTCTGGATAACTGGAAACAAGGAGACAATCCTATTGAAA
AGCATAAACAGCTGTATGCTAGTTGTAGCTTTATTCAGAATCTGGTTTCAGCTAGTCTGGGATCCACCTCTAAGAATATT
TCTCCAGTGAGAAGCAGTTTTGCACATTCTTCATCTCCCACTTTGGAACATGGTGGCTCATTCAGTGGTTCTTATTCCAA
CCTTTCACCAAACCCTCTCAATTCTAGAGCAGTCGAAGACTTCTCTGCATTGAGGACTAACCACTACAGTTATACAATGA
GTACTGAAGAAGCCAGATTTCTTACTTATCGTTTGTGGCCCTTAACCTTTCTGTCACCATCAGAATTGGCAACAGCTGGT
TTTTATTATATAGGACCCAGAGATAGGGTAGCCTGCTTTGCTTGTGGTGGGAAGCTAAGTAACTGGGAACCAAAGGCTGA
TGCTATATCAGAACACTGGAGACATTTTCCCAACTGTCCGTTTTTGGAAAATTCTCTAGAAACTCTGAGGTTTAGCATTT
CAAATCTGAGCATGCAGACATATGCAGCTCAAATGAGAACATTTGTGTATTAGCCATCTAGTGTTCCAGTTCGTCCTGAG
AAGCTTGCAAGTGCTGGTTTTTATTACGTGGGTTACAATGATGATGTCAAATGCTTTTATTGTGATGGTGGCTTGAGGTG
TTGAGAATTTGGAGATGATCCATGAGTAGAACATGCCAAGTGGTTTCCAAGGTGTGAGTTCTTGATATACATGAAAGGGC
AAGGATTTGTTGATGAGATTCAAGGTCGATATCTTCATCTTCTTGAACAGCTGTTGTCAACTTCAGATACTCCTGGAGAT
GAAAATGCTGATCCACCAATTGTTCATTTTGTATCTGGAGAAAGTTCTTCAGAAGATGCAGTCATGATGAATACACCTGT
GGTGAAATCTGCCTTGGAAATGGGCTTTAGTAGAAGCCTGGTAAGACAGTTCAGAGCAAAATCCTAACTACTGGAGAGAA
GTACAAAACAGTCAGTGTTATTATATCAGCTCTTCTGAATGCTGAAAATGAAAAAAGAGAAGAGGAAAAGGAAAGACAAG
CTGAAGAAATGGCATCAGATGACTTGTTATTAATTTGGAAGAATAGAATAGCTCTCTTGCAGTGGTTGACGTGTGTGCTT
CCTATCCTGGATAATCTTTTAAAGGTCAATGTAATTAATAAACAGGAACATGATATTATTAAACAAAAAACACAGATACC
TTTACAAGCAAGAGAACAGATTGATACCATTTTAGTGAAAGGACATGCTGCAGCCAACATCTTCAAAAAGTGTCTAAAAG
AAATCGGTTCTACATTATATAAGGACTTATTTGTGGATAAGAATATGAAGTATATTCCAACAGAAGATGTTTCAGGTCTG
TCACTGGAAGAACAGTTGAGGAGGTTACAAGAAGAAAGAACTTGTAAAGTGTGTATGGACAAAGAGGTTTCCATTGTATT
TATTCCTTGGTCATCCGGTAGTGTGCCAGGAATGTGCCCCTTCTCTAAAAAAATGCCCCATTTGCAGGGGTATAATCAAG
TGTACTGTTCGTACATTTCTCTCA

Alignment

ORF - retro_ogar_3331 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.86 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MEDSPILSNWTNDN-KQKMNCDLSCELYRMFTYSAFPAGVPVSERSLAHAGFYYKGVNDKVKCLCYSLML
          MEDSPILSNWTNDN..QKM.CD.S.ELYR..TYS.FPA.VPVSERSLAHAGFYY.G.NDKVKCLCYSL.L
Retrocopy MEDSPILSNWTNDN<QQKMKCDFSSELYRISTYSTFPADVPVSERSLAHAGFYYVGENDKVKCLCYSLIL

Parental  DNWKQGDNPIKKHKQLYASCSFIQNLVSASLGSTSKNISPVRSSFAHSLSPTLEHGGSFSGSYSNLSPNP
          DNWKQGDNPI.KHKQLYASCSFIQNLVSASLGSTSKNISPVRSSFAHS.SPTLEHGGSFSGSYSNLSPNP
Retrocopy DNWKQGDNPIEKHKQLYASCSFIQNLVSASLGSTSKNISPVRSSFAHSSSPTLEHGGSFSGSYSNLSPNP

Parental  LNSRAVKDFSALRTNPYSYAMSTEEARFLTYHLWPLTFLSPSELARAGFYYIGPRDRVACFACGGKLSNW
          LNSRAV.DFSALRTN.YSY.MSTEEARFLTY.LWPLTFLSPSELA.AGFYYIGPRDRVACFACGGKLSNW
Retrocopy LNSRAVEDFSALRTNHYSYTMSTEEARFLTYRLWPLTFLSPSELATAGFYYIGPRDRVACFACGGKLSNW

Parental  EPKDDVMLEHRRHFPNCPFLENSLETLRFSTSNMSTQTYAARIRTFMYWPFSVPVWPEKLVSAGFYYVGR
          EPK.D...EH.RHFPNCPFLENSLETLRFS.SN.S.QTYAA..RTF.Y.P.SVPV.PEKL.SAGFYYVG.
Retrocopy EPKADAISEHWRHFPNCPFLENSLETLRFSISNLSMQTYAAQMRTFVY*PSSVPVRPEKLASAGFYYVGY

Parental  NDDVKWFCRDGGLRYWEFGDDPWVEHAKWFPRCEFLIRMKGQGFVDEIQGRYPHLLEQLLSTSDTPGDEN
          NDDVK.F..DGGLR..EFGDDP.VEHAKWFPRCEFLI.MKGQGFVDEIQGRY.HLLEQLLSTSDTPGDEN
Retrocopy NDDVKCFYCDGGLRC*EFGDDP*VEHAKWFPRCEFLIYMKGQGFVDEIQGRYLHLLEQLLSTSDTPGDEN

Parental  ADPPIVHFGSGESASEDAVMVNTPVVKSALEMGFSRLV-RQTVQSKILTTGEKYKIVNDIVSALLNSADE
          ADPPIVHF.SGES.SEDAVM.NTPVVKSALEMGFSR.....TVQSKILTTGEKYK.V..I.SALLN...E
Retrocopy ADPPIVHFVSGESSSEDAVMMNTPVVKSALEMGFSRSL<GKTVQSKILTTGEKYKTVSVIISALLNAENE

Parental  KREEEKERQAEEMASGDDLSLIRKNRIALFRRLTCVLPILDNLLKVNVINKQEHDIIKQKTQIPLQAREL
          KREEEKERQAEEMAS.DDL.LI.KNRIAL...LTCVLPILDNLLKVNVINKQEHDIIKQKTQIPLQARE.
Retrocopy KREEEKERQAEEMAS-DDLLLIWKNRIALLQWLTCVLPILDNLLKVNVINKQEHDIIKQKTQIPLQAREQ

Parental  IDTILVKGHAAANIFKNCLKEIGSTLYKDLFVDKNMKKYIPTEDVSGLSLEEQLRSLQEERTCKVCMDKE
          IDTILVKGHAAANIFK.CLKEIGSTLYKDLFVDKNM.KYIPTEDVSGLSLEEQLR.LQEERTCKVCMDKE
Retrocopy IDTILVKGHAAANIFKKCLKEIGSTLYKDLFVDKNM-KYIPTEDVSGLSLEEQLRRLQEERTCKVCMDKE

Parental  VSIVFILCGHLVVCQECAPSLRKCP-ICRSIIKCTVHTFLS
          VSIVFI......V...C.P...K.P.ICR.IIKCTV.TFLS
Retrocopy VSIVFIPWSSGSVPGMC-PFSKKMP>ICRGIIKCTVRTFLS

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_3331 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 5 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000035735	1 retrocopy	retro_btau_1262,
Monodelphis domestica	ENSMODG00000000608	3 retrocopies	retro_mdom_1857, retro_mdom_585, retro_mdom_683,
Otolemur garnettii	ENSOGAG00000010377	2 retrocopies	retro_ogar_2542, retro_ogar_953,
Otolemur garnettii	ENSOGAG00000025670	1 retrocopy	retro_ogar_2859,
Otolemur garnettii	ENSOGAG00000030385	1 retrocopy	retro_ogar_3331 ,