RetrogeneDB ID: retro_ogar_1989

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873579.1:10587740..10588546(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TADA1
• Ensembl ID: ENSOGAG00000007621
• Aliases: None
• Description: transcriptional adaptor 1 [Source:HGNC Symbol;Acc:30631]

Sequence

>retro_ogar_1989
ATGGCGACCTTTGTGAGCGAGCTGGAGGTGGCCTAGAAGAACTTGAGCGAGGCCCTGGGGGACAACGTGAAACAATACTG
GGCTAATTTGAAGTTGTGGTTCAAGCAGAAGATCAGTAAGGAAGAGTTTGACCTTGAAGCTCATAGACTTCTTACACAGG
ATAATGTACAGTCTCACAACAATTTCCTTCTGGCCATTCTCACGCGTTGTCAGATTTTGGTTTCTACACCAGAGTGTGCC
GGATCTTTGCCTTGGACAGGGGGTTCTGCAGCCAAACCTGGAAAACCCAAGGGAAAGAAAAAGCTTTCTTCTGTTCGTCA
GAAATTTGATCATAAATTCCAGCCTCAAAATCCCCTCTCAGGAGCCCAGCAGTTTGTGGCAAAGGATCCCCAAGATGATG
ATGACTTGAAACTTTGTTCCCATACAACGATGCTTCCTACTCGGGGTCAGCTTGAAGGGAGAATGATAGTGACTGCTTAG
GAGCATGGGCTGGACAACGTCACTGAGCAGGCTGTTTCAGCTGTTGTCTATGCAGTGGAGAATCACCTTAAAGATATACT
GACATCAGTTGTGTCAAGAAGGAAAGCTTACCGGTTACGAGATGGCCATTTTAAATATGCCTTTGGTAGTAATGTGACCC
CACAGCCTTACCTGAAGAATAGTGTAGTAGCTTACAACAACTTAATAGAAAGCCCTCCAGCTTTTTCTGCTCCCTGTGCT
GGTCAGAATCCAGCTTTGCATCCACCCCCTGATGACGCTGGGGACACGCTGCCTGCCTCCTTGCCTCCTGTGAACATGTA
CGACCT

Alignment

ORF - retro_ogar_1989 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.59 %
• Parental protein coverage: 80.3 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MATFVSELEAAKKNLSEALGDNVKQYWANLKLWFKQKISKEEFDLEAHRLLTQDNVHSHNDFLLAILTRC
          MATFVSELE.A.KNLSEALGDNVKQYWANLKLWFKQKISKEEFDLEAHRLLTQDNV.SHN.FLLAILTRC
Retrocopy MATFVSELEVA*KNLSEALGDNVKQYWANLKLWFKQKISKEEFDLEAHRLLTQDNVQSHNNFLLAILTRC

Parental  QILVSTPECAGSLPWTGGSAAKPGKPKGKKKLSSVRQKFDHRFQPQNPLSGAQQFVAKDPQDDDDLKLCS
          QILVSTPECAGSLPWTGGSAAKPGKPKGKKKLSSVRQKFDH.FQPQNPLSGAQQFVAKDPQDDDDLKLCS
Retrocopy QILVSTPECAGSLPWTGGSAAKPGKPKGKKKLSSVRQKFDHKFQPQNPLSGAQQFVAKDPQDDDDLKLCS

Parental  HTMMLPTRGQLEGRMIVTAYEHGLDNVTEEAVSAVVYAVENHLKDILTSVVSRRKAYRLRDGHFKYAFGS
          HT.MLPTRGQLEGRMIVTA.EHGLDNVTE.AVSAVVYAVENHLKDILTSVVSRRKAYRLRDGHFKYAFGS
Retrocopy HTTMLPTRGQLEGRMIVTA*EHGLDNVTEQAVSAVVYAVENHLKDILTSVVSRRKAYRLRDGHFKYAFGS

Parental  NVTPQPYLKNSVVAYNNLIESPPAFSAPCAGQNPASHPPPDDAEQ-QAALLLACAGDTLP
          NVTPQPYLKNSVVAYNNLIESPPAFSAPCAGQNPA.HPPPDDA....AA.LLA......P
Retrocopy NVTPQPYLKNSVVAYNNLIESPPAFSAPCAGQNPALHPPPDDAGD<HAACLLASCEHVRP

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_1989 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 11 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000015607	1 retrocopy	retro_cfam_849,
Choloepus hoffmanni	ENSCHOG00000012658	1 retrocopy	retro_chof_602,
Cavia porcellus	ENSCPOG00000025598	1 retrocopy	retro_cpor_1225,
Dasypus novemcinctus	ENSDNOG00000018606	1 retrocopy	retro_dnov_1293,
Homo sapiens	ENSG00000152382	1 retrocopy	retro_hsap_3928,
Gorilla gorilla	ENSGGOG00000008168	1 retrocopy	retro_ggor_2644,
Mus musculus	ENSMUSG00000026563	1 retrocopy	retro_mmus_865,
Otolemur garnettii	ENSOGAG00000007621	1 retrocopy	retro_ogar_1989 ,
Pongo abelii	ENSPPYG00000000557	1 retrocopy	retro_pabe_3243,
Pan troglodytes	ENSPTRG00000001627	1 retrocopy	retro_ptro_2671,
Tupaia belangeri	ENSTBEG00000007283	1 retrocopy	retro_tbel_3501,