RetrogeneDB ID: retro_ogar_2745

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873659.1:2892032..2892628(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZC3H8
• Ensembl ID: ENSOGAG00000002554
• Aliases: None
• Description: zinc finger CCCH-type containing 8 [Source:HGNC Symbol;Acc:30941]

Sequence

>retro_ogar_2745
AGGCACTTTGGAAACTCATCATCAAAGAATTTGCTACATAGAAAATCAAGAAGTAAGGACTATGATGTATATAGTGATAA
TGATGTGGGCAATCAGGAGTCAGAAGATAATTTTGCCAACGAACTTCAACAGTATATACAAGCTAAAGAAATGGCGAATG
CTGCTCAACCTCTACCATTTCCTGAAGAATCTATGAAGAAAGAGGGAGCAAAAGATACTCAGCAAGCTGCTAAACAAAAA
ATAAAGCTACTAAAGCTGATCATGAGAGTAACAAAAAGAAGAAAATGAAATGAAAATGGCCTGGCCCTGGAAGCAAAGAA
TCAAATGCTTTGCTGAGAAACAGTGGCTCTCAGGAGGAGGATGGTAAACCTAAAGAGAAGCAGCAGCACGTGAGAATGAG
TCAGGGATTCATCAACCAACGTACAGTGGAATACAAGGGAAGACAAATTTGTAAATAATTTCTTGAAAGGAAATGTATTA
AGGGAGACCAGTGTAAATTTGATCATGATGCAGAGCTACAGAAGAAAAAGGAAATGTGCAAGTTTTATGTACAAAGATAT
TGTACCAGAGGCTAAAACTGTCTATATTTGCATAAT

Alignment

ORF - retro_ogar_2745 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.13 %
• Parental protein coverage: 64.63 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  RHFRNSTSSKNLLRRKSRSKDYDLYSDDDVCNQESEDNFAKELQQYIQAKEKANAAQPLPFPEESMKKEG
          RHF.NS.SSKNLL.RKSRSKDYD.YSD.DV.NQESEDNFA.ELQQYIQAKE.ANAAQPLPFPEESMKKEG
Retrocopy RHFGNS-SSKNLLHRKSRSKDYDVYSDNDVGNQESEDNFANELQQYIQAKEMANAAQPLPFPEESMKKEG

Parental  AKDTQQAAKQN-NKTIKADHKSNNKKKKMKRKRPSPGKKGSNALLRNSGSQEEDGKPKEKQQHVRMSQGF
          AKDTQQAAKQ..NK..KADH.SN.KKKKMK.K.P.PG.K.SNALLRNSGSQEEDGKPKEKQQHVRMSQGF
Retrocopy AKDTQQAAKQK<NKATKADHESN-KKKKMK*KWPGPGSKESNALLRNSGSQEEDGKPKEKQQHVRMSQGF

Parental  INQHTVEYKGKQICKYFLERKCIKGDQCKFDHDAEIEKKKEMCKFYVQGYCTRGENCLYLHN
          INQ.TVEYKG.QICK.FLERKCIKGDQCKFDHDAE..KKKEMCKFYVQ.YCTRG.NCLYLHN
Retrocopy INQRTVEYKGRQICK*FLERKCIKGDQCKFDHDAELQKKKEMCKFYVQRYCTRG*NCLYLHN

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_2745 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 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000008258	1 retrocopy	retro_cpor_28,
Dasypus novemcinctus	ENSDNOG00000018056	1 retrocopy	retro_dnov_1975,
Oryctolagus cuniculus	ENSOCUG00000011253	1 retrocopy	retro_ocun_1773,
Otolemur garnettii	ENSOGAG00000002554	2 retrocopies	retro_ogar_1723, retro_ogar_2745 ,