RetrogeneDB ID: retro_ogar_2702

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873650.1:3695512..3695863(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000033604
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: SUPT4H1
• Ensembl ID: ENSOGAG00000031972
• Aliases: None
• Description: suppressor of Ty 4 homolog 1 (S. cerevisiae) [Source:HGNC Symbol;Acc:11467]

Sequence

>retro_ogar_2702
ATGGCTCTGGAGATGGTGCCCAAGGACTTGCAGTATCTGCAGGCTTGTTTGTTGTGTTCGCTGGTCAAGACCATAGACGA
GTTTGAGTACAACGGTTGTGACAATTGTGATGTATACTTACAGATGAAGGGTAACAGAGAGATGGTATATGATTGCACCA
GCTCCTCCTTTGATGGAATCATTGCGATGATGAGTCTAGAGGACAGCTGGGTTCCCAAGTGGCAGCGAGTCAGTAACTTT
AAGCCAGGTGTATCTGCAGTATCAGTCACTGGTCACCTGCTGCAGGAAATCGTGCGGGAGCTGAAAAGTCGAGGAGTGGC
CTACAAATCCGGAGACACAGCTATAAAGACC

Alignment

ORF - retro_ogar_2702 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.03 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MALETVPKDLRHLRACLLCSLVKTIDQFEYDGCDNCDAYLQMKGNREMVYDCTSSSFDGIIAMMSPEDSW
          MALE.VPKDL..L.ACLLCSLVKTID.FEY.GCDNCD.YLQMKGNREMVYDCTSSSFDGIIAMMS.EDSW
Retrocopy MALEMVPKDLQYLQACLLCSLVKTIDEFEYNGCDNCDVYLQMKGNREMVYDCTSSSFDGIIAMMSLEDSW

Parental  VSKWQRVSNFKPGVYAVSVTGRLPQGIVRELKSRGVAYKSRDTAIKT
          V.KWQRVSNFKPGV.AVSVTG.L.Q.IVRELKSRGVAYKS.DTAIKT
Retrocopy VPKWQRVSNFKPGVSAVSVTGHLLQEIVRELKSRGVAYKSGDTAIKT

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_2702 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 5 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000017369	3 retrocopies	retro_cjac_1196, retro_cjac_1990, retro_cjac_4216,
Dipodomys ordii	ENSDORG00000002826	2 retrocopies	retro_dord_177, retro_dord_220,
Macropus eugenii	ENSMEUG00000010164	1 retrocopy	retro_meug_2079,
Myotis lucifugus	ENSMLUG00000025583	1 retrocopy	retro_mluc_761,
Otolemur garnettii	ENSOGAG00000031972	1 retrocopy	retro_ogar_2702 ,