RetrogeneDB ID: retro_ogar_2517

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873630.1:6649090..6649728(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DUSP12
• Ensembl ID: ENSOGAG00000000590
• Aliases: None
• Description: dual specificity phosphatase 12 [Source:HGNC Symbol;Acc:3067]

Sequence

>retro_ogar_2517
ACTGCTTTTGTGATGAAGACTGATCTGGTCACCTTTGAAATAGCCTGTGGGTATCCCCAGACTGTCAAACCAGATGCTAA
GATGAATGAAGGGTTTGAGCGGCGACTGAAATTATAGCAGGCAATGGGTTATGAAGTGGCTATCTCTAGTGCAATTCGTA
AGCAGTATCCTTAAATGGTTACAGAGAAGCATCCAGAGCTGCAGACTATACCGCAAGAACTCTTTGCTGTTGACCCAACC
CCCACTTTGGAAGGATCAAAAGATAAGGTTCTCTACAAATGTAGGAAGTGCAGGAGATCCTTATTTCGAAGTTCTAGTAT
TTTGGATCATAATGAAGGAAGTGGGCCCGAAGCCTTTGTCCACAAGAGAATGACACTACCTTTCATGGTTAGCATAGGGC
ATCAGCCTCAGTGTACATCTATTTCATTGAGCCTGTTCAGTGGATGGAATCCGCTTTGTTAAGAGTGAGGGACGGACAGC
TTATTTGCCCAAAATGCAGTGCCAAGTTGTATTCCTTCAACCGGTATGGTGAACAGTGCACCCGTGGGAGATGGGTAATA
CCTGCTTTTCAAATACATAAGAACAGAGTGGATGAAATTAAAGTGCTGCTAGTTTGGGGGTCACAAACAAGAACAATG

Alignment

ORF - retro_ogar_2517 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.93 %
• Parental protein coverage: 62.72 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  TAFVMKTNLVTFEEAYGHLQSVKPDAKMNEGFERQLKLYQAMGYEVDTSSAIYKQYRLQVVTEKYPELQN
          TAFVMKT.LVTFE.A.G..Q.VKPDAKMNEGFER.LKL.QAMGYEV..SSAI.KQY....VTEK.PELQ.
Retrocopy TAFVMKTDLVTFEIACGYPQTVKPDAKMNEGFERRLKL*QAMGYEVAISSAIRKQYP*-MVTEKHPELQT

Parental  IPQELFAVDPATTLEGSNDKVLYKCRKCRRSLFRSSSILDHNEGSGPEAFVHKRMTLPFMVSIG--PRCT
          IPQELFAVDP..TLEGS.DKVLYKCRKCRRSLFRSSSILDHNEGSGPEAFVHKRMTLPFMVSIG..P.CT
Retrocopy IPQELFAVDPTPTLEGSKDKVLYKCRKCRRSLFRSSSILDHNEGSGPEAFVHKRMTLPFMVSIGHQPQCT

Parental  S-YFIEPVQWMEFSLLGVMDGQLLCPKCRAKLGSFNWCGEQCSCGRWITPAFQIHKNRVDEIKALPVLGS
          S.YFIEPVQWME..LL.V.DGQL.CPKC.AKL.SFN..GEQC..GRW..PAFQIHKNRVDEIK.L.V.GS
Retrocopy S<YFIEPVQWMESALLRVRDGQLICPKCSAKLYSFNRYGEQCTRGRWVIPAFQIHKNRVDEIKVLLVWGS

Parental  QTRTI
          QTRT.
Retrocopy QTRTM

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_2517 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
Otolemur garnettii	ENSOGAG00000000590	1 retrocopy	retro_ogar_2517 ,
Ictidomys tridecemlineatus	ENSSTOG00000025153	1 retrocopy	retro_itri_1224,
Tupaia belangeri	ENSTBEG00000015805	1 retrocopy	retro_tbel_3726,