RetrogeneDB ID: retro_ogar_2341

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873613.1:5587784..5588279(+)
• Located in intron of: ENSOGAG00000001105

Retrocopy information

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

Parental gene information

• Parental gene symbol: BRMS1L
• Ensembl ID: ENSOGAG00000016974
• Aliases: None
• Description: breast cancer metastasis-suppressor 1-like [Source:HGNC Symbol;Acc:20512]

Sequence

>retro_ogar_2341
GAATGTCTAGATGAAATGTCCAATCTTGAAAAACAGTTTACCCATCTCAAAGATCAACTTTATAAAGAACAATTAAGTCA
AGTGGATGCAAAATTACAAGTCATAGCTGGAAAAGCACCAGAATATTTGGAACAACTGGCAACTCTACAGGAAAATATGA
AAATTTGTACAAAGGTAGCAGGAATCTATAGAGAGCTCTGTTGAGAATCTATAAAGAAGTATGAATGTGAAATTCAAGGT
TCTCGCCAACACTGTGAGAGTGAAAAACTTGCATTGTACGATACAGTCCAGAATGAACTAGAGGAGAAGATAGGAAGGCT
AGAAGAGGATGGGTACAGCATTGATATTATGTCAGAGCTGTGGATTGATGAGCCTCAGTCAAGAAAAAAGAGGAAGGATC
CTTTCAGTCCTGATAAAAAGAAGTCTATTGTTTTTTCAGGTCCATATATAGTTTATATGCTATAAGATCTTGATATTCAT
GAAGACTGGACAACA

Alignment

ORF - retro_ogar_2341 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.23 %
• Parental protein coverage: 51.7 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ECLDEMSNLEKQFTDLKDQLYKERLSQVDAKLQEVIAGKAPEYLEPLATLQENMQIRTKVAGIYRELCLE
          ECLDEMSNLEKQFT.LKDQLYKE.LSQVDAKLQ.VIAGKAPEYLE.LATLQENM.I.TKVAGIYRELC.E
Retrocopy ECLDEMSNLEKQFTHLKDQLYKEQLSQVDAKLQ-VIAGKAPEYLEQLATLQENMKICTKVAGIYRELC*E

Parental  SVKNKYECEIQASRQHCESEKLLLYDTVQSELEEKIRRLEEDRHSIDITSELWNDELQSRKKRKDPFSPD
          S.K.KYECEIQ.SRQHCESEKL.LYDTVQ.ELEEKI.RLEED..SIDI.SELW.DE.QSRKKRKDPFSPD
Retrocopy SIK-KYECEIQGSRQHCESEKLALYDTVQNELEEKIGRLEEDGYSIDIMSELWIDEPQSRKKRKDPFSPD

Parental  KKKPVVVSGPYIVYMLQDLDILEDWTT
          KKK..V.SGPYIVYML.DLDI.EDWTT
Retrocopy KKKSIVFSGPYIVYML*DLDIHEDWTT

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_2341 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000016974	1 retrocopy	retro_ogar_2341 ,
Oreochromis niloticus	ENSONIG00000019497	1 retrocopy	retro_onil_62,
Ochotona princeps	ENSOPRG00000017354	1 retrocopy	retro_opri_1025,