RetrogeneDB ID: retro_ogar_1118

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873536.1:21110937..21111624(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PIR
• Ensembl ID: ENSOGAG00000003304
• Aliases: None
• Description: pirin (iron-binding nuclear protein) [Source:HGNC Symbol;Acc:30048]

Sequence

>retro_ogar_1118
TTCACTCATATCGATGTTTTGAAACAGTATCTTTCATGGTCCACGAAAGACTTCTGTGGACACGTTGGTAAAATGGACCC
AGGAGACCTGCAGTGGATGACGCGGACCGGGGCATCCTGCACGCCGAGATGCCTTGCTCAGTGGAGCCCACCCGTGGCTT
ACAACTTTGGGTTAATTTGAGGAGCTCTGAGAAGATGGTGGAGCCGCAGTATCAAGAACTAAAAAGTAAAGAAATTCCTA
AGCCCACCAAAGATGGTGTGACAATTGTGGTTATCTCTGGAGAAGTCCTAGGAATAAAGTCCAAGATTTATACGAGTACA
TCAACTTTATATTTGGATTTCAAACTGCATGAAGGCGCAAAACATACATAGCCTGTTTCTAGAGGATGGACACGCTTTAT
ATACATGATCTCTGGAGATGGAGATGTATACGTTGGACCTAACGACGCACAAGGAAAAATAGAACCATACCATACAGCAG
TACTTGGGGAGAAGTTCGGGCGGAGAACGAGGATCTGAAGAGAAGCCACTTCGTCTTAATTGCTGGGAGCCATTAAAGGA
ACTGGTTGTCCAATATGGTCCATTTGTAATGAACACCAGAGAAGAAATTTCTCATGCCATTCTGGATTTCAGAAACAGAA
AAAATAGATTCAAAAAGGCCAAAACCTGGAAATCAAAGATCGGAAAC

Alignment

ORF - retro_ogar_1118 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.24 %
• Parental protein coverage: 79.45 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  FETVSYLLEGGSMAHEDFCGHVGRLDPGDLQWMT-AGRGILHAEMPCTEEPAHGLQLWVNLRSCEKMVEP
          F.....L....S....DFCGHVG..DPGDLQWMT.A.RGILHAEMPC..EP..GLQLWVNLRS.EKMVEP
Retrocopy FTHIDVLKQYLSWSTKDFCGHVGKMDPGDLQWMT<ADRGILHAEMPCSVEPTRGLQLWVNLRSSEKMVEP

Parental  QYQDLKSKEIPKPSKDGVTIAVISGEALGVKSKIYTRTPTLYLDFKMDGGSKHTQPIPRGWTSFIYTLS-
          QYQ.LKSKEIPKP.KDGVTI.VISGE.LG.KSKIYT.T.TLYLDFK...G.KHT.P..RGWT.FIY..S.
Retrocopy QYQELKSKEIPKPTKDGVTIVVISGEVLGIKSKIYTSTSTLYLDFKLHEGAKHT*PVSRGWTRFIYMISG

Parental  -GDVYIGKPVPRQKVQTQLTISIASGKKASRK-RQDQKGSHFVLIAG-EPIREPIVQHALGPFVMNTREE
          .GDVY.G......K.....T.....G.K..R....D.K.SHFVLIAG.EP..E..VQ...GPFVMNTREE
Retrocopy DGDVYVGPNDAQGKIEPYHTAVL--GEKFGRR<NEDLKRSHFVLIAG<EPLKELVVQY--GPFVMNTREE

Parental  ISQAILDYRNGKNGFEKAKTWKSKIGN
          IS.AILD.RN.KN.F.KAKTWKSKIGN
Retrocopy ISHAILDFRNRKNRFKKAKTWKSKIGN

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_1118 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 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000009477	1 retrocopy	retro_btau_298,
Felis catus	ENSFCAG00000010486	1 retrocopy	retro_fcat_779,
Otolemur garnettii	ENSOGAG00000003304	2 retrocopies	retro_ogar_1073, retro_ogar_1118 ,
Tupaia belangeri	ENSTBEG00000008256	1 retrocopy	retro_tbel_1669,
Tursiops truncatus	ENSTTRG00000006770	1 retrocopy	retro_ttru_448,