RetrogeneDB ID: retro_ogar_456

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873521.1:36877576..36878262(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000032790
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: CWC15
• Ensembl ID: ENSOGAG00000001686
• Aliases: None
• Description: CWC15 spliceosome-associated protein homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:26939]

Sequence

>retro_ogar_456
ATGACCACAGCAGCCAGGCCAACTTTTGAACCTGCCAGAAGTGGAAGAGGAACAGGAGAAGGTGATTTGAGTCAACTCTC
AAAGCAGTATTCAAGCAGAGACCTACCCTCTCATACAAAGATAAAGTACAGACAGACAGCTCAGGATGCTCCTGAAGAGG
TGCGCAACCGTGACTTCAGGAGAGAGTTGGAAGAAAGAGAGAGAGCTGCTGCAGGAGAGAAAAATAGAGACTGCCCAACC
CGAGAACATACAACCTCCTCTTTAGTGTCTAAAAAGCCTCAGTTAGACCAGATTCCTGCTGCCAACCTTGATGCAGATGA
CCTGCTAACAGACGAGGAAGATGAAGATTTTGAAGAAGAAAGTGATGATGATGGTACTGCAGCTCTTCTTGCAGAACTGC
AAAAAATTAAAAAAGAAGGAGCTGAGGAGCAAGCCAGGAAGGAACAAGAGCAAAAAGCTGAAGAAGAAAGGATTCGTATG
GAGAATATTCTGAGTGGAAATCCTCTCTTAACTCTCACTGGCCCATCCCAGCCTCAGGCCAACTTCCAAGTTCAAAGAAG
GTGGGATGACGATGTTGTTTTCAAGAACTGTGCAAAAGGTGTAGACGATCAGAAGAAAGACAAAAGGTTTGTAAATGATA
TACGCGGTCTGAATTTCACAAAAAGTTCATGGAGAAATATATGAAG

Alignment

ORF - retro_ogar_456 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.43 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MTTAARPTFEPARGGRGKGEGDLSQLSKQYSSRDLPSHTKIKYRQTTQDAPEEVRNRDFRRELEERERAA
          MTTAARPTFEPAR.GRG.GEGDLSQLSKQYSSRDLPSHTKIKYRQT.QDAPEEVRNRDFRRELEERERAA
Retrocopy MTTAARPTFEPARSGRGTGEGDLSQLSKQYSSRDLPSHTKIKYRQTAQDAPEEVRNRDFRRELEERERAA

Parental  AREKNRDRPTREHTTSSSVSKKPRLDQIPAANLDADDPLTDEEDEDFEEESDDDDTAALLAELEKIKKER
          A.EKNRD.PTREHTTSS.VSKKP.LDQIPAANLDADD.LTDEEDEDFEEESDDD.TAALLAEL.....E.
Retrocopy AGEKNRDCPTREHTTSSLVSKKPQLDQIPAANLDADDLLTDEEDEDFEEESDDDGTAALLAELXXXXXEG

Parental  AEEQARKEQEQKAEEERIRMENILSGNPLLNLTGPSQPQANFKVKRRWDDDVVFKNCAKGVDDQKKDKRF
          AEEQARKEQEQKAEEERIRMENILSGNPLL.LTGPSQPQANF.V.RRWDDDVVFKNCAKGVDDQKKDKRF
Retrocopy AEEQARKEQEQKAEEERIRMENILSGNPLLTLTGPSQPQANFQVQRRWDDDVVFKNCAKGVDDQKKDKRF

Parental  VNDT-LRSEFHKKFMEKYIK
          VND...RSEFHKKFMEKY.K
Retrocopy VNDI<TRSEFHKKFMEKYMK

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_456 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 13 parental genes, and 28 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000007913	1 retrocopy	retro_btau_703,
Canis familiaris	ENSCAFG00000004134	6 retrocopies	retro_cfam_1329, retro_cfam_2123, retro_cfam_503, retro_cfam_537, retro_cfam_61, retro_cfam_805,
Callithrix jacchus	ENSCJAG00000004188	1 retrocopy	retro_cjac_2802,
Cavia porcellus	ENSCPOG00000006249	1 retrocopy	retro_cpor_708,
Echinops telfairi	ENSETEG00000006649	1 retrocopy	retro_etel_647,
Felis catus	ENSFCAG00000007826	1 retrocopy	retro_fcat_1416,
Myotis lucifugus	ENSMLUG00000002032	3 retrocopies	retro_mluc_102, retro_mluc_2143, retro_mluc_2478,
Mus musculus	ENSMUSG00000004096	2 retrocopies	retro_mmus_2482, retro_mmus_593,
Ornithorhynchus anatinus	ENSOANG00000010404	1 retrocopy	retro_oana_5,
Otolemur garnettii	ENSOGAG00000001686	2 retrocopies	retro_ogar_2476, retro_ogar_456 ,
Rattus norvegicus	ENSRNOG00000008490	3 retrocopies	retro_rnor_2452, retro_rnor_251, retro_rnor_476,
Sarcophilus harrisii	ENSSHAG00000016534	5 retrocopies	retro_shar_26, retro_shar_333, retro_shar_447, retro_shar_596, retro_shar_768,
Tarsius syrichta	ENSTSYG00000000407	1 retrocopy	retro_tsyr_1585,