RetrogeneDB ID: retro_ogar_1314

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873542.1:9989563..9990502(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000026993
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: WDR82
• Ensembl ID: ENSOGAG00000016032
• Aliases: None
• Description: WD repeat domain 82 [Source:HGNC Symbol;Acc:28826]

Sequence

>retro_ogar_1314
ATGAGGCTCACCGACAACGTGCTGCAGAGCTTCCGCGTCGCCAAGGTGTTCCGTGAGAACTCGGACAAGATTAACTGTTT
GGATTTCAGCCCTAACGGCGAGACGGTTATCTCGAGCAGCGACGACGACTCCATCGTGCTCTATGACTGTCAGGAGGGTA
AACCAAAGAGAACCCTGTACAGTAAGAAATACGGGGTGGACCTCATCAGATACACTCACGCGGCCAACACAGTGGTTTAC
AGCTCTAACAAAATAGATGATACTATTCGTTACCTGTCGTTGCATGACAACAAATACATCCGATATTTTCCTGGACATAG
CAAAAGGGTGGTGGCCTTGTCCATGTCCCCTGTGGATGACACTTTCATTTCCGGGTCTCTTGATAAGACCATTCGACGCT
GGGATCTCCGGTCTCCTAACTGCCAGGGCCTCATGCACCTACAGGGCAAGCCAGTTTGTTCTTTTGATCCAGAAGGGTTA
ATTTTTGCCGCAGGTGTCAACTCTGAAATGGTCAAACTTTATGACCTTCGTTGTTTTGATAAGGGGCCGTTTGCAACCTT
TAAGATGCAGTATGATCGGACTTGTGAGTGGACAGGACTTAAGTTTAGCAATGATGGCAATCTCATCCTCATCTCCACCA
ATGGCGGCTTTATTCGTCTTATTGATGCTTTTAAGGGAGTGGTGATGCACACGTTTGGGGGTTATGCTAACAGCAAAGCT
GTCACGCTGGAGGCTTCATTTACTCCAAACTCTCAGTTTATTATGATTGGTTCAGAGGATGGCAAGATCCATGTTTGGAA
TGGAGAGAGTGGTATAAAAGTAGCTGTTTTGGATGGTAAACACACAGGCCCCATTACCTGTTTGCAGTTCAACCCCAAGT
TCATGACCTTTGCCAGTGCATGTTCCACCATGGCCTTCTGGTTGCCCACCATTGATGAC

Alignment

ORF - retro_ogar_1314 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.81 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MKLTDSVLRSFRVAKVFRENSDKINCFDFSPNGETVISSSDDDSIVLYDCQEGKPKRTLYSKKYGVDLIR
          M.LTD.VL.SFRVAKVFRENSDKINC.DFSPNGETVISSSDDDSIVLYDCQEGKPKRTLYSKKYGVDLIR
Retrocopy MRLTDNVLQSFRVAKVFRENSDKINCLDFSPNGETVISSSDDDSIVLYDCQEGKPKRTLYSKKYGVDLIR

Parental  YTHAANTVVYSSNKIDDTIRYLSLHDNKYIRYFPGHSKRVVALSMSPVDDTFISGSLDKTIRLWDLRSPN
          YTHAANTVVYSSNKIDDTIRYLSLHDNKYIRYFPGHSKRVVALSMSPVDDTFISGSLDKTIR.WDLRSPN
Retrocopy YTHAANTVVYSSNKIDDTIRYLSLHDNKYIRYFPGHSKRVVALSMSPVDDTFISGSLDKTIRRWDLRSPN

Parental  CQGLMHLQGKPVCSFDPEGLIFAAGVNSEMVKLYDLRSFDKGPFATFKMQYDRTCEWTGLKFSNDGKLIL
          CQGLMHLQGKPVCSFDPEGLIFAAGVNSEMVKLYDLR.FDKGPFATFKMQYDRTCEWTGLKFSNDG.LIL
Retrocopy CQGLMHLQGKPVCSFDPEGLIFAAGVNSEMVKLYDLRCFDKGPFATFKMQYDRTCEWTGLKFSNDGNLIL

Parental  ISTNGSFIRLIDAFKGVVMHTFGGYANSKAVTLEASFTPDSQFIMIGSEDGKIHVWNGESGIKVAVLDGK
          ISTNG.FIRLIDAFKGVVMHTFGGYANSKAVTLEASFTP.SQFIMIGSEDGKIHVWNGESGIKVAVLDGK
Retrocopy ISTNGGFIRLIDAFKGVVMHTFGGYANSKAVTLEASFTPNSQFIMIGSEDGKIHVWNGESGIKVAVLDGK

Parental  HTGPITCLQFNPKFMTFASACSNMAFWLPTIDD
          HTGPITCLQFNPKFMTFASACS.MAFWLPTIDD
Retrocopy HTGPITCLQFNPKFMTFASACSTMAFWLPTIDD

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_1314 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 11 parental genes, and 20 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000000774	1 retrocopy	retro_chof_2299,
Callithrix jacchus	ENSCJAG00000006114	1 retrocopy	retro_cjac_3022,
Homo sapiens	ENSG00000164091	2 retrocopies	retro_hsap_2816, retro_hsap_419,
Loxodonta africana	ENSLAFG00000028309	1 retrocopy	retro_lafr_639,
Macropus eugenii	ENSMEUG00000009280	1 retrocopy	retro_meug_1207,
Macaca mulatta	ENSMMUG00000008234	2 retrocopies	retro_mmul_339, retro_mmul_511,
Monodelphis domestica	ENSMODG00000011614	4 retrocopies	retro_mdom_1259, retro_mdom_144, retro_mdom_219, retro_mdom_398,
Nomascus leucogenys	ENSNLEG00000007104	2 retrocopies	retro_nleu_1016, retro_nleu_1195,
Otolemur garnettii	ENSOGAG00000016032	1 retrocopy	retro_ogar_1314 ,
Pongo abelii	ENSPPYG00000013812	2 retrocopies	retro_pabe_185, retro_pabe_300,
Rattus norvegicus	ENSRNOG00000048441	3 retrocopies	retro_rnor_1003, retro_rnor_1109, retro_rnor_1152,