RetrogeneDB ID: retro_ogar_3011

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873696.1:1271741..1272201(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZCCHC10
• Ensembl ID: ENSOGAG00000032171
• Aliases: None
• Description: zinc finger, CCHC domain containing 10 [Source:HGNC Symbol;Acc:25954]

Sequence

>retro_ogar_3011
GAAGCAAATAAGCAACGTGTGAGATGTCAGAACTGCTTGGAATTTGGACATTGGACTTACAAAAGCACAGGAAAAAGAAA
ATACCTGCATAGGCCTTCAAAAACAGCAGAACTGAAGAAAGCTTTCAAAAAAAAAAAGAAAACAGGTTGTTATTCAGCAA
GGCATTGGAGAAACGAATGCAGAAAGAAAGACCAAGAACAAAAGGTCTCAAAGCTAAGCAGTTCCAGTGGCAGCAGCAGT
GGCCGTTCAGCCAGTGACTCTTCATCAGGCGGTGAAGAGACGCCTGCCTCACCCTCCGCAGAACACAGGGACTCGGCTGA
AAGCCCCACTGGTGCACCGTCTGCAGCCTCCTCCACCAGCTGTCCCTGGTCCTCTGGCTCAGACTCACATCCCATCTCTT
AGTAGCAGCAGCACAGATCACAGCTCCGAGGAGGAACCACCGAAGAAGAGGAAAAAGAAA

Alignment

ORF - retro_ogar_3011 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.78 %
• Parental protein coverage: 80.83 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  EANKQHVRCQKCLEFGHWTYECTGKRKYLHRPSRTAELKKAL-KEKENRLLLQQSIGETNVERKTKKKRS
          EANKQ.VRCQ.CLEFGHWTY..TGKRKYLHRPS.TAELKKA...........QQ.IGETN.ERKTK.KRS
Retrocopy EANKQRVRCQNCLEFGHWTYKSTGKRKYLHRPSKTAELKKAF>XXXXKQVVIQQGIGETNAERKTKNKRS

Parental  KS-VTSSSSSSSDSSASDSSSDSEETSTSSSSEDSDTDESSSSSSSSASSTSYSSSSDSDSD-SSSSSSS
          .S...SSS.SSS..SASDSSS..EET..S.S.E..D..ES.....S.ASSTS...SS.SDS...S.SSSS
Retrocopy QS<LSSSSGSSSGRSASDSSSGGEETPASPSAEHRDSAESPTGAPSAASSTSCPWSSGSDSH>PSLSSSS

Parental  STSTDSSSEDEPPKKKKKK
          ...TD.SSE.EPPKK.KKK
Retrocopy ---TDHSSEEEPPKKRKKK

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_3011 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 8 parental genes, and 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000031203	1 retrocopy	retro_cfam_643,
Choloepus hoffmanni	ENSCHOG00000001420	9 retrocopies	retro_chof_1243, retro_chof_1263, retro_chof_1773, retro_chof_2048, retro_chof_2132, retro_chof_2183, retro_chof_501, retro_chof_790, retro_chof_923,
Dasypus novemcinctus	ENSDNOG00000017302	1 retrocopy	retro_dnov_257,
Myotis lucifugus	ENSMLUG00000011366	4 retrocopies	retro_mluc_172, retro_mluc_2240, retro_mluc_2241, retro_mluc_2574,
Monodelphis domestica	ENSMODG00000013827	1 retrocopy	retro_mdom_1405,
Mus musculus	ENSMUSG00000018239	1 retrocopy	retro_mmus_269,
Otolemur garnettii	ENSOGAG00000032171	1 retrocopy	retro_ogar_3011 ,
Rattus norvegicus	ENSRNOG00000006943	3 retrocopies	retro_rnor_2037, retro_rnor_2528, retro_rnor_801,