RetrogeneDB ID: retro_ogar_1073

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873535.1:15549800..15550336(+)
• 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_1073
GTGGGGTCCTCCAAGAAGGTTACTCTCACAGTGCTCAGCCAGGAGCAGTCGGAAGGGGTTGGAGCAAGAGTCCGCAGAAG
CATTGGAGGACTTGAGTTTAAAAATCTAGATCCATTTTTGCTGTTTGATGAATTTAAAGGAGGTAAACGAGGTGGATTTC
CTGATCACCCACATCGAGGTTTTGAAACAGTACCTTGCCTCCTGAAGGGGGCAGCATGGCTCATGAAGTCTTCTGTGAAC
ACGTTGGTAAAATGGACCCAGGAGACCTACAGGGGATGACTGCAGGCGGGGGCATCCTGCACGCTGAGACGCCTGGCTCA
GCGGACCCCGCCCAAGGCTTACAACTTTGGGTTAATTTGAGGAGCTCTGAGAAGATGGTGGAGCCTCAGTATCAAGAACT
AAAAAGTAAAGAAATCCCTGAGCCTGCTAAAGACGGTGTGACAATTGCGGTCATCTCTGGAGAAGCCCTAGGTAAGATTT
ATACACGTACACCAACTTTATATTTGGACTTGAAACTAGACCAAGGCGCAACATAC

Alignment

ORF - retro_ogar_1073 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.87 %
• Parental protein coverage: 62.33 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MGSSKKVTLTVLSREQSEGVGARVRRSIGRPELKNLDPFLLFDEFKGGKPAGFPDHPHRGFETVSYLL-E
          .GSSKKVTLTVLS.EQSEGVGARVRRSIG..E.KNLDPFLLFDEFKGGK..GFPDHPHRGFETV..LL.E
Retrocopy VGSSKKVTLTVLSQEQSEGVGARVRRSIGGLEFKNLDPFLLFDEFKGGKRGGFPDHPHRGFETVPCLL<E

Parental  GGSMAHEDFCGHVGRLDPGDLQWMTAGRGILHAEMPCTEEPAHGLQLWVNLRSCEKMVEPQYQDLKSKEI
          GGSMAHE.FC.HVG..DPGDLQ.MTAG.GILHAE.P....PA.GLQLWVNLRS.EKMVEPQYQ.LKSKEI
Retrocopy GGSMAHEVFCEHVGKMDPGDLQGMTAGGGILHAETPGSADPAQGLQLWVNLRSSEKMVEPQYQELKSKEI

Parental  PKPSKDGVTIAVISGEALGVKSKIYTRTPTLYLDFKMDGGSKH
          P.P.KDGVTIAVISGEALG...KIYTRTPTLYLD.K.D.G...
Retrocopy PEPAKDGVTIAVISGEALG---KIYTRTPTLYLDLKLDQGATY

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_1073 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.

---

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,