RetrogeneDB ID: retro_ogar_1778

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873565.1:8548449..8549267(+)
• 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_1778
CATGGAAAGGTGGCCCATAAACAAGTTGCAGCAGAATTGCTGGACAGGGAAGAAGCAAGAAATAGGTTTCATCTCATAGC
TATGGATGCTTATCAAAGACATACAAAGTTTATAAATGACTACATTTTATACTATGGTGGCAAAAAAGAAGACGTTCAGG
CGTTTGGGGGGAAATGACAAAACAGATTTGGATGTTATACGAGAAAATCATAGATTCCTGTAGAATGAGGAGGACGAAAT
GGACATGACTTGGGAAAAGAGACTTGCTAAGAAATACTATGACAAGCTATTCAAGGAATACTGCATAGCAGATCTCAGTA
GATACAAAGAAAATAAGTTTGGATTTAGGTGGCAAATAGAAAAAGAAGTAATTTCAGGAAAACGTCAGTTTTTCTGTGGA
AATAAATGTTGTGATGAAAAAGAGGGCTTAAAGAGTTGGGAAGTTAATTTTGGTTATACTGAGCATGGTGAAAAGAGAAA
TGCACTTGTTAAATTAAGATTATGCCAGGAATGTTCCTTTAAATTGAATTTTCATCACAGGAGAAAAGAAATCAAGTCAA
AAAAAAGAAAGGACAAAAGCAAAAGAGATTGTGAAGAGTCATCACATAAAAAAATCCAGATTATCTTCAGCAGAAGAGGC
CACCAAGAAAAAGGATAAAGGACATTCATCCTCAAAGAAATCAGAAGATTATGTAAATAGAAATTCTGATGAGGAAGAAA
GTGCTTCAGAATCTGAACTTTGGAAGGGTCCACTGCCAGAGACAGATGAAAAATCACAGGAAGAAGAATTTGATGAGTAT
TTTCAAGATTTGTTCCTG

Alignment

ORF - retro_ogar_1778 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.45 %
• Parental protein coverage: 86.67 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  HGKVAHKQVAAELLDREEARNRRFHLIAMDAYQRHTKFINDYILYYGGKKED-FRRLGENDKTDLDVIRE
          HGKVAHKQVAAELLDREEARNR.FHLIAMDAYQRHTKFINDYILYYGGKKED.FRRLG.NDKTDLDVIRE
Retrocopy HGKVAHKQVAAELLDREEARNR-FHLIAMDAYQRHTKFINDYILYYGGKKED>FRRLGGNDKTDLDVIRE

Parental  NHRFLWNEEDEMDMTWEKRLAKKYYDKLFKEYCIADLSRYKENKFGFRWRIEKEVISGKGQFFCGNKCCD
          NHRFL.NEEDEMDMTWEKRLAKKYYDKLFKEYCIADLSRYKENKFGFRW.IEKEVISGK.QFFCGNKCCD
Retrocopy NHRFL*NEEDEMDMTWEKRLAKKYYDKLFKEYCIADLSRYKENKFGFRWQIEKEVISGKRQFFCGNKCCD

Parental  EKEGLKSWEVNFGYIEHGEKRNALVKLRLCQECSFKLNFHHRRKEIKSKKRKDKSKRDCEESSH-KKSRL
          EKEGLKSWEVNFGY.EHGEKRNALVKLRLCQECSFKLNFHHRRKEIK..........DCEESSH.KKSRL
Retrocopy EKEGLKSWEVNFGYTEHGEKRNALVKLRLCQECSFKLNFHHRRKEIKXXXXXXXXXXDCEESSH>KKSRL

Parental  SSAEEATKKKDKGHSSSKKSEDYVNRNSDEEESASESELWKGPLPETDEKSQEEEFDEYFQDLFL
          SSAEEATKKKDKGHSSSKKSEDYVNRNSDEEESASESELWKGPLPETDEKSQEEEFDEYFQDLFL
Retrocopy SSAEEATKKKDKGHSSSKKSEDYVNRNSDEEESASESELWKGPLPETDEKSQEEEFDEYFQDLFL

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_1778 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,