RetrogeneDB ID: retro_ogar_22

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873600.1:6167147..6168263(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000016099
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: TMEM30A
• Ensembl ID: ENSOGAG00000015718
• Aliases: None
• Description: transmembrane protein 30A [Source:HGNC Symbol;Acc:16667]

Sequence

>retro_ogar_22
GCAGCCCCCAGGCTCGCCCAGCGCGGACGGGGGGGTGGCCGTCCCGGCGCGGCCGCCATGACCTGGAGCGCCACAGCCCG
GGGCGCCCACCAGCCCGACAACACCGCGTTCACGCAGCAGCGCCTCCCCGCCTGGCAGCCGCTGCTGTCCGCCAGCATCG
CGCTGCCGCTCTTCTTCTGCGCGGGGCTGGCCTTCATCGGCCTGGGCCTGGGCCTCTACTACTCCTCCAACGGCATCAAG
GAGCTAGAGTACGACTACACCGGCGACGCGGGCACCGGCAACTGCTCCCTGTGCGCCGCGGCCGGCCAGGGCCGCGCGCC
GCCGCCCAGCTGCTCGTGCGCCTGGTACTTCTCGCTGGCCGAGCTCTTCCAGGGCCCCGTGTACCTGTACTACGAGCTGA
CCAACTTCTACCAGAACAACCGGCGCTACGGCGTGTCCCGCGACGACCGGCAGCTGAGCGGGGTGCGCTTCGCGCTGTTC
CACCCGGCCAACGAGTGCGCCCCCTACCAGCGCAGCGCCGGCGGCCTGCCCATCGCGCCTTGCGGCGCCATCGCCAACAG
CCTCTTCAACGACTCCTTCTCGCTGTGGCACCAGCGCCAGCCCGGCGGGCCCTACGTCGAGGTGCCGCTGGACCGCACGG
GCATCGCCTGGTGGACCGACTACCACGTCAAGTTCCGCAACCCGCCGCTGGTGAACGGCAGCCTGGCGCTGGCCTTCCGC
GGCACGGTGCCCCCGCCCAACTGGCACCGGCCGGTCTACGAGCTCAGCCGCGACCCCAACAACACCGGCTTCATCAACCA
GGACTTCGTGGTGTGGATGCGCACGGCCGCGCTGCCCACCTTCCGCAAGCTGTACGCGCGCATCCGCCAGGGCAACTACT
CGGCCGGGCTACCGCGCGGCGCCTACCGCGTCAACATCACCTACAACTACCCGGTGCGCGCTTTCGGCGGCCACAAGCTC
CTCATCTTCAGCAGCATCTCGTGGATGGGCGGCAAGAACCCCTTCCTGGGTATCGCCTACCTGGTCGTCGGCTCCCTCTG
CATCCTCACCGGCTTCGTCATGCTGGTCGTCTACATTCGCTACCAGGACCAGGACGACGACGACGACGACGACTGA

Alignment

ORF - retro_ogar_22 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.38 %
• Parental protein coverage: 55.87 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  CVCTINFTLEESFEGNVFMYYGLSNFYQNHRRYVKSRDDSQLNGDLSALTNPSKECEPYRRN-NDKPIAP
          C.C...F.L.E.F.G.V..YY.L.NFYQN.RRY..SRDD.QL.G...AL..P..EC.PY.R.....PIAP
Retrocopy CSCAWYFSLAELFQGPVYLYYELTNFYQNNRRYGVSRDDRQLSGVRFALFHPANECAPYQRSAGGLPIAP

Parental  CGAIANSMFNDTLELFHIGNDSDP-TPITLKKKGIAWWTDKNVKFRNPP-GGDNLEERFKDTTKPVNWLR
          CGAIANS.FND...L.H......P.....L...GIAWWTD..VKFRNPP.....L...F..T..P.NW.R
Retrocopy CGAIANSLFNDSFSLWHQRQPGGPYVEVPLDRTGIAWWTDYHVKFRNPPLVNGSLALAFRGTVPPPNWHR

Parental  PVYMLDSDPDNNGFINEDFIVWMRTAALPTFRKLYRLIERKNELHPTLPAGRYYLNITYNYPVHSFDGRK
          PVY.L..DP.N.GFIN.DF.VWMRTAALPTFRKLY..I.R.......LP.G.Y..NITYNYPV..F.G.K
Retrocopy PVYELSRDPNNTGFINQDFVVWMRTAALPTFRKLYARI-RQGNYSAGLPRGAYRVNITYNYPVRAFGGHK

Parental  RMILSTISWMGGKNPFLGIAYITIGSISFLLGVVLLVINHKYRNSSNTAD
          ..I.S.ISWMGGKNPFLGIAY...GS...L.G.V.LV....Y.......D
Retrocopy LLIFSSISWMGGKNPFLGIAYLVVGSLCILTGFVMLVVYIRYQDQDDDDD

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_22 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 15 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000005100	1 retrocopy	retro_btau_72,
Canis familiaris	ENSCAFG00000002708	1 retrocopy	retro_cfam_26,
Callithrix jacchus	ENSCJAG00000010325	1 retrocopy	retro_cjac_801,
Cavia porcellus	ENSCPOG00000020712	1 retrocopy	retro_cpor_23,
Homo sapiens	ENSG00000112697	1 retrocopy	retro_hsap_12,
Myotis lucifugus	ENSMLUG00000011923	1 retrocopy	retro_mluc_1871,
Monodelphis domestica	ENSMODG00000018502	1 retrocopy	retro_mdom_287,
Mus musculus	ENSMUSG00000032328	1 retrocopy	retro_mmus_108,
Nomascus leucogenys	ENSNLEG00000004962	1 retrocopy	retro_nleu_69,
Otolemur garnettii	ENSOGAG00000015718	1 retrocopy	retro_ogar_22 ,
Pongo abelii	ENSPPYG00000016782	1 retrocopy	retro_pabe_204,
Pelodiscus sinensis	ENSPSIG00000007174	1 retrocopy	retro_psin_61,
Rattus norvegicus	ENSRNOG00000010895	1 retrocopy	retro_rnor_399,
Ictidomys tridecemlineatus	ENSSTOG00000002543	1 retrocopy	retro_itri_50,
Tarsius syrichta	ENSTSYG00000008211	1 retrocopy	retro_tsyr_928,