RetrogeneDB ID: retro_ogar_860

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873529.1:10191870..10192816(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FRA10AC1
• Ensembl ID: ENSOGAG00000013362
• Aliases: None
• Description: fragile site, folic acid type, rare, fra(10)(q23.3) or fra(10)(q24.2) candidate 1 [Source:HGNC Symbol;Acc:1162]

Sequence

>retro_ogar_860
ATGCATGGTCATGGAGGCTATGACTCTGATTTTAGTGATGATGAACACTATCGGGAATCTAGCAAAAAGAAAAAAAGAAC
AAGGGAAGACGATTTATTGCTCAAAAAACCATTCCAGAAAGAAAAACATGGAAAGGTGGCCCATAAACAAGTTGCAGCAG
AATTGCTGGACAGGGAAGAAGCAAGAAATACAAGGTTTCATCTCATAGCTATGGATGCTTATCAAAGACATACAAAGTTT
ATAAATGACTACATTTTGTACTATGGTGGCAAAAAAAGAAGACTTCAGGCGTTTGGGGGAAAATGACAAAACAGATTTGG
ATGTTATACGAGAAAATCATAGATTCCTATGGAATGAGGAGGACGAAATGGACATGACTTGGGAAAAGAGACTTGCTAAG
AAATACTACGACAAGTTATTCAAGGAATACTGCATAGCAGATCTCAGTAGATACAAAGAAAATAAGTTTGGATTTAGGTG
GTGAATAGAAAAAGAAGTAATTTCAGGAAAAGGTCAGTTTTTCTGTGGAAATAAATGTTGTGATGAAAAAGAGGGCTTAA
AGAGTTGGGAAGTTAATTTTGGTTATATTGAGCGTGGTGAAAAGAGAAATGCACTTGTTAAATTAAGATTATGCCAGGAA
TGTTCCTTTAAATTGAATTTTCATCACAGGAGAAAAGAAATCAAGTCAAAAAAAAGAAAGGACAAAAGCAAAAGAGATTG
TGAAGAGTCATCACATAAAAAAGCCAGATTATCTTCAGCAGAAGAGGCCACCAAGAAAAAGGATAAAGGACATTCATCCT
CAAAGAAATCAGAAGATTATGTAAATAGAAATTCTGATGAGGAAGAAAGTGCTTCAGAATCTGAACTTTGGAAGGGTCCA
CTGCCAGAGACAGATGAAAAATCACAGGAAGAAGAATTTGATGAGTATTTTCAGGATTTGTTCCTG

Alignment

ORF - retro_ogar_860 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.46 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MHGHGGYDSDFSDDEHYGESSKKKKRTKEDDLLLKKPFQKEKHGKVAHKQVAAELLDREEARNRRFHLIA
          MHGHGGYDSDFSDDEHY.ESS.....T.EDDLLLKKPFQKEKHGKVAHKQVAAELLDREEARN.RFHLIA
Retrocopy MHGHGGYDSDFSDDEHYRESSXXXXXTREDDLLLKKPFQKEKHGKVAHKQVAAELLDREEARNTRFHLIA

Parental  MDAYQRHTKFINDYILYYGG-KKEDFRRLGENDKTDLDVIRENHRFLWNEEDEMDMTWEKRLAKKYYDKL
          MDAYQRHTKFINDYILYYGG.KKEDFRRLGENDKTDLDVIRENHRFLWNEEDEMDMTWEKRLAKKYYDKL
Retrocopy MDAYQRHTKFINDYILYYGG>KKEDFRRLGENDKTDLDVIRENHRFLWNEEDEMDMTWEKRLAKKYYDKL

Parental  FKEYCIADLSRYKENKFGFRWRIEKEVISGKGQFFCGNKCCDEKEGLKSWEVNFGYIEHGEKRNALVKLR
          FKEYCIADLSRYKENKFGFRW.IEKEVISGKGQFFCGNKCCDEKEGLKSWEVNFGYIE.GEKRNALVKLR
Retrocopy FKEYCIADLSRYKENKFGFRW*IEKEVISGKGQFFCGNKCCDEKEGLKSWEVNFGYIERGEKRNALVKLR

Parental  LCQECSFKLNFHHRRKEIKSKKRKDKSKRDCEESSHKKSRLSSAEEATKKKDKGHSSSKKSEDYVNRNSD
          LCQECSFKLNFHHR...............DCEESSHKK.RLSSAEEATKKKDKGHSSSKKSEDYVNRNSD
Retrocopy LCQECSFKLNFHHRXXXXXXXXXXXXXXXDCEESSHKKARLSSAEEATKKKDKGHSSSKKSEDYVNRNSD

Parental  EEESASESELWKGPLPETDEKSQEEEFDEYFQDLFL
          EEESASESELWKGPLPETDEKSQEEEFDEYFQDLFL
Retrocopy EEESASESELWKGPLPETDEKSQEEEFDEYFQDLFL

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_860 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 1 parental gene, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000013362	2 retrocopies	retro_ogar_1778, retro_ogar_860 ,