RetrogeneDB ID: retro_ogar_2681

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873647.1:4045246..4045837(+)
• Located in intron of: ENSOGAG00000033488

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000034456
• Aliases: None
• Description: None

Sequence

>retro_ogar_2681
TGTCCAGAGAGCTGCTGTGAGCCACCCTGCTGCACCCCCAGCTGCTGTGCCCCAACCCCCTGCCTGACCCTGGTCTGCAG
CCCAGTGAGCTGTGTGTCCAGCTCCTGCCAACCAGTCTGCACCAGCTCCTGCACACCCTCATGCTGCCAGCAGTCTAGCT
GCCAGCCAGCTTGCTGCACCCCGTCCCCCTGCCAGCCGGCCTGCTGTGTGCCCATGAGCTGCAAGCCTGTGTGCTGTGTG
CCCGTCTGCCCTGGAGATTCCTCTTCATGCTGCCAGCAGACTAGCTGTCCGCCGACTTGCTGCACTCCCAGCTGCTGCGT
CCCAGCCCCCTCTCTGACCCTGGTCTGCAGCCCAGTGAGCTGTGTGTCCAGCCCCTGCCAACCAGTCTGCACCAGCTCCT
GCACACCCTCATGCTGCCAGCAGTCTAGCTGCCAGCCAGCTTGCTGCACCCCGTCCCCTTGCCAGCAGGCCTGCTGTGTG
CCTGTCTGTTGCAAGCCTGTGTGTTGCAAGCCTGTGTGCTGTGTGCCCGTCTGCCCTGGGGTCACCCCCTGCCCAGCCGC
CTCGTGCTGCCAGCCCAGCCCCTGCCCCTCC

Alignment

ORF - retro_ogar_2681 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 58.08 %
• Parental protein coverage: 67.13 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  CAPSCCAPTPCLTLVCSPVSCVSSPCQPVCCVSSPCQPVCTSSCTPSCCLQSSCQPACCTSSPCQPACCV
          C..SCC.P..C....C.P..C....C.PV.CVSS.CQPVCTSSCTPSCC.QSSCQPACCT.SPCQPACCV
Retrocopy CPESCCEPPCCTPSCCAPTPCLTLVCSPVSCVSSSCQPVCTSSCTPSCCQQSSCQPACCTPSPCQPACCV

Parental  PVSCKPVCCVPVCSGDSSKCCQQSSCQPACCTPSPCQSACCVPVNCKPVCCV--PICSGDSSSC----CQ
          P.SCKPVCCVPVC.GDSS.CCQQ.SC.P.CCTPS.C..A......C.PV.CV..P......SSC....CQ
Retrocopy PMSCKPVCCVPVCPGDSSSCCQQTSCPPTCCTPSCCVPAPSLTLVCSPVSCVSSPCQPVCTSSCTPSCCQ

Parental  QSSCQPACCTPSPCQQACCVPVSCKPVCCKPVCCVPICSGASSVCCQQSSCQPACCTS
          QSSCQPACCTPSPCQQ.....................C.G....C...S.CQP..C.S
Retrocopy QSSCQPACCTPSPCQQXXXXXXXXXXXXXXXXXXXXVCPGVTP-CPAASCCQPSPCPS

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_2681 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000008415	1 retrocopy	retro_amel_1917,
Otolemur garnettii	ENSOGAG00000034456	1 retrocopy	retro_ogar_2681 ,
Rattus norvegicus	ENSRNOG00000001218	2 retrocopies	retro_rnor_380, retro_rnor_382,