RetrogeneDB ID: retro_ogar_330

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873520.1:28736668..28737050(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: STMN2
• Ensembl ID: ENSOGAG00000027869
• Aliases: None
• Description: stathmin-like 2 [Source:HGNC Symbol;Acc:10577]

Sequence

>retro_ogar_330
AGCCTTAAGCTGATCTTAAAGCCACCATCTCCTATCTCAGAAGCCCCACGAATTTTAGCTTCTCCAAAGAAGAAAGACCT
GTCCCTGAAGAAGATCCAGAAGAAAGTGGAGGCTGCAGCAGAAAGAAAATAGTCTCAGGAGGCGCAGGTGCTGAAACAAT
TGGCAGAGCAGAGGGAACACGAGCGAGAAGTCCTTCAGAAGGCTTTGGGGGAAAACAACAACTTCAACAAGATGGTGGAG
GAAAAGCTGATCCTGAAAATGGAACAAATTAAGGAAAACCGTGAGGTGAATCTAGCTGCTATTTATCGGATGTCTGCAGG
AAAAGGAGAGGCATGCTGCAGAGATGCGCAGGAACAAGGGGCTCCAGGTTAAACTGTCTGGC

Alignment

ORF - retro_ogar_330 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.59 %
• Parental protein coverage: 70.56 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  AFELILKPPSPISEAPRTLASPKKKDLSLEEIQKKLEAAEERRKSQEAQVLKQLAEKREHEREVLQKALE
          ...LILKPPSPISEAPR.LASPKKKDLSL..IQKK.EAA.ER..SQEAQVLKQLAE.REHEREVLQKAL.
Retrocopy SLKLILKPPSPISEAPRILASPKKKDLSLKKIQKKVEAAAERK*SQEAQVLKQLAEQREHEREVLQKALG

Parental  ENNNFSKMAEEKLILKMEQIKENREANLAAI-IERLQEKERHAAEVRRNKELQVELSG
          ENNNF.KM.EEKLILKMEQIKENRE.NLAAI.I..LQEKERHAAE.RRNK.LQV.LSG
Retrocopy ENNNFNKMVEEKLILKMEQIKENREVNLAAI>IGCLQEKERHAAEMRRNKGLQVKLSG

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_330 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 7 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000003373	3 retrocopies	retro_dnov_2381, retro_dnov_545, retro_dnov_831,
Mustela putorius furo	ENSMPUG00000001863	1 retrocopy	retro_mputfur_68,
Otolemur garnettii	ENSOGAG00000027869	2 retrocopies	retro_ogar_2664, retro_ogar_330 ,
Oryzias latipes	ENSORLG00000008251	1 retrocopy	retro_olat_37,
Sorex araneus	ENSSARG00000010989	1 retrocopy	retro_sara_756,
Ictidomys tridecemlineatus	ENSSTOG00000025094	2 retrocopies	retro_itri_1012, retro_itri_1423,
Tarsius syrichta	ENSTSYG00000014759	1 retrocopy	retro_tsyr_26,