RetrogeneDB ID: retro_ogar_3280

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873763.1:889763..890085(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SIVA1
• Ensembl ID: ENSOGAG00000016881
• Aliases: None
• Description: SIVA1, apoptosis-inducing factor [Source:HGNC Symbol;Acc:17712]

Sequence

>retro_ogar_3280
AGTCTTACTATGTTGCCCTCAGTAGAGTGCTGTGGCCCTGTGGGGGCCCAAGGACTTCATGTGGGCAAATGCTGATCGGA
CCTGATGGCTGCCTGACCAGGAGCCTGGGCAGGCCTCTGAAGCTGACCCATCTGGGGCAGCATCCATCACCTGCTCTTTG
TGCATTCGAGCTGTGGATGGGAAGGCCGTCTGTGGCCAGTGTGAGCGGGCCTTGTGTGGGCGGTGTGTGTGCACCTGCTG
GGGCTACGGCACTGTGGCCTGTGCCCTTTGTGGCCTCATGGACTGCAGCGATGTTTATGAGAAAGCGCTGTGGGCCAGCT
GC

Alignment

ORF - retro_ogar_3280 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.36 %
• Parental protein coverage: 61.71 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  AIVRLPESPKPGPVGA-PRATRGQMLIGPDGRLTRSLG-QASEADPSGAASIACSSCVRTVDGKAVCGQC
          ....LP.....GPVGA.PR...GQMLIGPDG.LTRSLG.QASEADPSGAASI.CS.C.R.VDGKAVCGQC
Retrocopy SLTMLPSVECCGPVGA<PRTSCGQMLIGPDGCLTRSLG<QASEADPSGAASITCSLCIRAVDGKAVCGQC

Parental  ERALCRQCVRSCWGCGAVACALCGLMDCSDVYEKALCASC
          ERALC..CV..CWG.G.VACALCGLMDCSDVYEKAL.ASC
Retrocopy ERALCGRCVCTCWGYGTVACALCGLMDCSDVYEKALWASC

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_3280 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 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000024811	1 retrocopy	retro_cpor_1163,
Dasypus novemcinctus	ENSDNOG00000005703	2 retrocopies	retro_dnov_1591, retro_dnov_2683,
Mus musculus	ENSMUSG00000064326	1 retrocopy	retro_mmus_2288,
Otolemur garnettii	ENSOGAG00000016881	1 retrocopy	retro_ogar_3280 ,