RetrogeneDB ID: retro_ogar_1291

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873541.1:15452305..15453284(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SLC25A16
• Ensembl ID: ENSOGAG00000011191
• Aliases: None
• Description: solute carrier family 25 (mitochondrial carrier; Graves disease autoantigen), member 16 [Source:HGNC Symbol;Acc:10986]

Sequence

>retro_ogar_1291
GCGGCCCTGGTCCCAATGGCAGTGGCCCACCCTCCTTCTGCTATGCTGCAGGTGGCAGGGGCCGGAGGGCCCACCGCCCG
CTGAGACGTCTACTGGCTGCGTTCCTTTCTGGCCAGAGGTATTGCTGGATGCTGTGCCAAAACAATTGCCCCATTGGATT
GAGTAAAGGTTTTATTACAAGCCCACAATTACCATTATAAGCATTTAGGAGTATTTTCTGCATTGCGTGCTGTTCCCCCA
AAGGAAGGATTCCTTGGATTGTATAAAGGAAATGGTGCGATGATGATTCGAATCTTTCTCGATGGTGCAATCCAGTTTAT
GGCATTTGAACATTATAAAACGTTAATTACTACAAAGCTGGGAGTTTCGGGTCATGTGCACAGATTAATGGCTGGATCCG
TGGCAGGTATGACAGCAGTTATCTGTACTTACCCTCTTAACATGATTAGAGTTCGCCTCACATTCCAGGTGAAAGGGGAA
CACACCTATACAGGAATTATTCATGCATTCAAAACAATTTATGCAAAGGAAGGTGGTTTCCTTTGATTTTACAGAGGCCT
GATGCCTACTATATTAGGAAGGGCTCCATATGCAGGCGTTTCGTTTTTTACTTTTGGTACCTTAAAGAGTGTTGGGCTTT
CCCATGCTCCTACCCTTCCTGGCAGACCTTCATCAGACAATCCTAAGGTTTTAGTTTGAAAACTCACACAAACTTACTTT
GTGGTGGTGTTGCTGGAGCAGTAGCACAGACGATATCCTATCCATTTGATGTAACTCGTTGGCGAATGCAATTAGGAACT
TCTCTGTCAGAATTTGAAAAGTGCCTTACCATGAGGAATACTATGAAGTATGTCTATGGACAGCATGGAATTCGAAAGGA
TTATATTGTGGTTTATCTCTTAATTACATTCGTCGCATCCCCTCTCAAGCAGTGGCTTTTACAAGATATGAACTTATGAA
GCAATTTTTTCACCTCAAC

Alignment

ORF - retro_ogar_1291 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.95 %
• Parental protein coverage: 98.8 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  AAAATLTAADPPSAMPQGAGTGGPTARRDFYWLRSFLAGGIAGCCAKTTVAPLDRVKVLLQAHNHHYKHL
          AA......A.PPSAM.Q.AG.GGPTAR.D.YWLRSFLA.GIAGCCAKT..APLD.VKVLLQAHN.HYKHL
Retrocopy AALVPMAVAHPPSAMLQVAGAGGPTAR*DVYWLRSFLARGIAGCCAKT-IAPLD*VKVLLQAHNYHYKHL

Parental  EIGVFSALRAVPQKEGFLGLYKGNGAMMIRIFPYGAIQFMAFEHYKTLITTKLGVSGHVHRLMAGSMAGM
          ..GVFSALRAVP.KEGFLGLYKGNGAMMIRIF..GAIQFMAFEHYKTLITTKLGVSGHVHRLMAGS.AGM
Retrocopy --GVFSALRAVPPKEGFLGLYKGNGAMMIRIFLDGAIQFMAFEHYKTLITTKLGVSGHVHRLMAGSVAGM

Parental  TAVVCTYPLDMVRVRLAFQVKGEHTYTGIIHAFKTIYAKEGGFLGFYRGLMPTILGMAPYAGVSFFTFGT
          TAV.CTYPL.M.RVRL.FQVKGEHTYTGIIHAFKTIYAKEGGFL.FYRGLMPTILG.APYAGVSFFTFGT
Retrocopy TAVICTYPLNMIRVRLTFQVKGEHTYTGIIHAFKTIYAKEGGFL*FYRGLMPTILGRAPYAGVSFFTFGT

Parental  LKSVGLSHAPTLLGRPSSDNPNVLV-LKTHVNLLCGGVAGAVAQTISYPFDVTRRRMQLGTSLPEFEKCL
          LKSVGLSHAPTL.GRPSSDNP.VLV.LKTH.NLLCGGVAGAVAQTISYPFDVTR.RMQLGTSL.EFEKCL
Retrocopy LKSVGLSHAPTLPGRPSSDNPKVLV<LKTHTNLLCGGVAGAVAQTISYPFDVTRWRMQLGTSLSEFEKCL

Parental  TMRDTMKYVYGQHGIR-KGLYRGLSLNYIRCIPSQAVAFTTYELMKQFFHLN
          TMR.TMKYVYGQHGIR.KGLY.GLSLNYIR.IPSQAVAFT.YELMKQFFHLN
Retrocopy TMRNTMKYVYGQHGIR<KGLYCGLSLNYIRRIPSQAVAFTRYELMKQFFHLN

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_1291 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
Monodelphis domestica	ENSMODG00000017305	1 retrocopy	retro_mdom_1534,
Otolemur garnettii	ENSOGAG00000011191	1 retrocopy	retro_ogar_1291 ,
Sus scrofa	ENSSSCG00000022303	1 retrocopy	retro_sscr_1000,