RetrogeneDB ID: retro_ogar_3171

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873735.1:1918019..1918489(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000009132
• Aliases: None
• Description: None

Sequence

>retro_ogar_3171
CTTCGACCATTCCAGGAGCACCACATCGACCCCACAGCTATTAGGTGGCACGACTTCATGGAGACCAATGGGGACAACTG
TCTGGTGACACTGCTGTCACTACTATACATGGCTTACAAGTTTTGCACCCAGAGCCATGAAACCCTGGAGCAATGTATCC
CTGGGAGTGCTTTGTCTTCTGCCTGATCATCTTTGGCACCTTTACCAACCAGATCCATAAGCCACTGCACACATACTTCT
GGCTGCCATGCTGGGTCACCCTCCTGCAGAACTGGCATGTCATCCTGCCTCCTAAACGCCACTGCATCTACCATGTGTCC
TCCCATAAGACTTACTTCTGTATCACCACAGTCGGGGTCAACTACCCTCTGCAGAAGCTCGGCTTCTGGACATGCCTGGA
GGACATCATCCAGGGCCTCATGGGAGAGAAGCCACAGGCAGATGACATAAAATTGGCCCAGAAGATCAAG

Alignment

ORF - retro_ogar_3171 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.48 %
• Parental protein coverage: 56.68 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  IRPFREHHIDPTAITRHDFIETNGDNCLVTLLPLLNMAYKFCTQSREALEQ-LYPWECFVFCLIIFGTFT
          .RPF.EHHIDPTAI..HDF.ETNGDNCLVTLL.LL.MAYKFCTQS.E.LEQ..YPWECFVFCLIIFGTFT
Retrocopy LRPFQEHHIDPTAIRWHDFMETNGDNCLVTLLSLLYMAYKFCTQSHETLEQ<MYPWECFVFCLIIFGTFT

Parental  NQIHKWSHTYFGLPRWVTLLQDWHIILPRKHHRIHHVSPHETYFCITTGWLNYPLEKIGFWRRLEDIIQG
          NQIHK..HTYF.LP.WVTLLQ.WH.ILP.K.H.I.HVS.H.TYFCITT...NYPL.K.GFW..LEDIIQG
Retrocopy NQIHKPLHTYFWLPCWVTLLQNWHVILPPKRHCIYHVSSHKTYFCITTVGVNYPLQKLGFWTCLEDIIQG

Parental  LTGEKPRADDMKWAQKIK
          L.GEKP.ADD.K.AQKIK
Retrocopy LMGEKPQADDIKLAQKIK

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_3171 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 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Mus musculus	ENSMUSG00000090213	2 retrocopies	retro_mmus_2219, retro_mmus_3132,
Otolemur garnettii	ENSOGAG00000009132	1 retrocopy	retro_ogar_3171 ,
Otolemur garnettii	ENSOGAG00000025894	12 retrocopies	retro_ogar_1381, retro_ogar_1391, retro_ogar_153, retro_ogar_1637, retro_ogar_1929, retro_ogar_2027, retro_ogar_2478, retro_ogar_2984, retro_ogar_3172, retro_ogar_3338, retro_ogar_620, retro_ogar_80,