RetrogeneDB ID: retro_ogar_1802

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873566.1:6259699..6260115(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ISCU
• Ensembl ID: ENSOGAG00000000936
• Aliases: None
• Description: iron-sulfur cluster scaffold homolog (E. coli) [Source:HGNC Symbol;Acc:29882]

Sequence

>retro_ogar_1802
ATGGCTACGGCTGGAGCGGGCGTCTGAGGCCGGCGTCTGAGGCGGCGGCGTTGGCCCTGTTGCTCCGGAGCCCGCGCTTG
CCCGCCCGGGAGCTGTCAGCTCCGGCTCGGTTCTACCATAAGAAGGTGGTTGACCATTATGAAAATCCTAGAAACGTGGG
GTCTCTTGACAAGACATCTAAAAATGTTGGGACTGGATCCGTGGGGGCTACAGCCTGTGGTGATGTAATGAAATTACGGC
TTCAAGTAGATGAAACCGGGGAGATCGTGGATGCCAGGTTTAAAACATTTGCCTGTGGCTCAGCCATTGCTTCTAGCTCA
GGAGCCACTGAGTGGGTGAAAGGGAAAACGGTGGAGGAAGCCTTGACCATCAAAAACACAGATATCGACTCTGCGCCTAT
AGCTCAACCGGCTAAG

Alignment

ORF - retro_ogar_1802 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80. %
• Parental protein coverage: 86.88 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MATAGAGRLRRRLRRRRW-ALLLRSPRLPARELSAPARLYHKKVVDHYENPRNVGSLDKTSKNVGTGLVG
          MATAGA..........RW.ALLLRSPRLPARELSAPAR.YHKKVVDHYENPRNVGSLDKTSKNVGTG.VG
Retrocopy MATAGAXXXXXXXXXXRW<ALLLRSPRLPARELSAPARFYHKKVVDHYENPRNVGSLDKTSKNVGTGSVG

Parental  APACGDVMKLQIQVDEKGKIVDARFKTFGCGSAIASSSLATEWVKGKTVEEALTIKNTDIAKELCLPPVK
          A.ACGDVMKL..QVDE.G.IVDARFKTF.CGSAIASSS.ATEWVKGKTVEEALTIKNTDI.......P.K
Retrocopy ATACGDVMKLRLQVDETGEIVDARFKTFACGSAIASSSGATEWVKGKTVEEALTIKNTDIDSAPIAQPAK

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_1802 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 4 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000015374	2 retrocopies	retro_cjac_1584, retro_cjac_1644,
Monodelphis domestica	ENSMODG00000002828	1 retrocopy	retro_mdom_1924,
Otolemur garnettii	ENSOGAG00000000936	4 retrocopies	retro_ogar_1082, retro_ogar_1802 , retro_ogar_425, retro_ogar_847,
Xenopus tropicalis	ENSXETG00000027428	1 retrocopy	retro_xtro_66,