RetrogeneDB ID: retro_ogar_629

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873524.1:25234077..25234686(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000006309
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: M6PR
• Ensembl ID: ENSOGAG00000005610
• Aliases: None
• Description: mannose-6-phosphate receptor (cation dependent) [Source:HGNC Symbol;Acc:6752]

Sequence

>retro_ogar_629
TGGAGGATTGGACTCCTAATGCTACTACTTCTGGCTGTGGCAGTGAAAGACTCCTGGCAGACAGAAGAAAAAACTTGTGA
CCTGGTAGGAGAAAAGGGTAAAGAGTCAGAGAAGGAGTTGGCTCTAGTGAAGAGGCTGCAACCACTGTTTAACAAAAGTT
TTGAAAGCACTGTGGGCCAGGACTCTGACGCATACATGTATATATTCAGGGTGTGCCGGGAAGCTGGCAACCACACTTCT
GGAGCAGGCCTGGTACAAATCAACAAAAGGAATGGGAAGGCGATGGTGGTTGGGAGACTCAACGAGACTCACATCTTCAA
TGGAAGTAATTGGATCATGCTGATCTATAACAGGGGTGATGAATATGACAAGCACTGTGGCAAGGAGCAGCGTCGTGCAG
TGGTGATGATCTCCTGCAATCCACACACCCTAGCGGACAATTTTCATCCTGTGTCTGAGGAGCGAGGCAAAGTCCACGAT
TGTTTCTACCTCTTTGAGATGGATAGCAGCCTGGCCTGTTCCTCAGAGAGCTCCCATCTCAGTGTGGGTTCTATCTTACT
TGTCACGTTTGTATCTCTGGTAGCTGTCTATATCATTGGGCGGTTCCTG

Alignment

ORF - retro_ogar_629 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.12 %
• Parental protein coverage: 73.02 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  WRIGLLMLLLLAVAVKDSWQTEEKTCDLVGEKGKESEKELALVKRLQPLFNKSFESTVGQGSDTYIYIFR
          WRIGLLMLLLLAVAVKDSWQTEEKTCDLVGEKGKESEKELALVKRLQPLFNKSFESTVGQ.SD.Y.YIFR
Retrocopy WRIGLLMLLLLAVAVKDSWQTEEKTCDLVGEKGKESEKELALVKRLQPLFNKSFESTVGQDSDAYMYIFR

Parental  VCREAGNHTSGAGLVQINKSNGKELVVGRLNETHIFNGSNWIMLIYKGGDEYDNHCGKEQRRAVVMISCN
          VCREAGNHTSGAGLVQINK.NGK..VVGRLNETHIFNGSNWIMLIY..GDEYD.HCGKEQRRAVVMISCN
Retrocopy VCREAGNHTSGAGLVQINKRNGKAMVVGRLNETHIFNGSNWIMLIYNRGDEYDKHCGKEQRRAVVMISCN

Parental  RHTLADNFNPVSEERGKVQDCFYLFEMDSSLACSPEISHLSVGSILLVTFASLVAVYIIGGFL
          .HTLADNF.PVSEERGKV.DCFYLFEMDSSLACS.E.SHLSVGSILLVTF.SLVAVYIIG.FL
Retrocopy PHTLADNFHPVSEERGKVHDCFYLFEMDSSLACSSESSHLSVGSILLVTFVSLVAVYIIGRFL

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_629 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
Dasypus novemcinctus	ENSDNOG00000003538	1 retrocopy	retro_dnov_2250,
Mus musculus	ENSMUSG00000007458	1 retrocopy	retro_mmus_2192,
Oryctolagus cuniculus	ENSOCUG00000017823	1 retrocopy	retro_ocun_1931,
Otolemur garnettii	ENSOGAG00000005610	1 retrocopy	retro_ogar_629 ,
Tarsius syrichta	ENSTSYG00000005689	2 retrocopies	retro_tsyr_1665, retro_tsyr_882,