RetrogeneDB ID: retro_ogar_1908

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873573.1:7702153..7702831(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: HORMAD1
• Ensembl ID: ENSOGAG00000005640
• Aliases: None
• Description: HORMA domain containing 1 [Source:HGNC Symbol;Acc:25245]

Sequence

>retro_ogar_1908
TGTTTGACTATGAAACTTTTTACTACAATGAAGTTATACCCACACATTATCTATCAGCCTCCTGGTTTTAAGGGTGGTGA
TTGTGAAGGAGTAATATTTGAATGGGAGCCTATGTACTTAAATGTGGGAGAGGTCCCAATACCCTTTCATACCTTCAAAG
TAAAAGTGACGAATGAAAAGGAACAAATGGAAAATATTGACTCAACTATACTGTCACCAAAATACTTAAAAACACCACTT
CAAAAAATCCTGATGGACAAAAATGATGATACACAAGATGAACAAGAGCATTGTGATGATTTTGACATTGAAACTAAAAT
GGAAGATCAGAAGAAAAACTCTGCATCTTCTGAACTTGGAGAACCAAGTTCATTTTGTGAGAAAGAGGAAATTAGGAGGC
CTAAGGAAAGTCCACATCTTCCAATTTCTCATTCTCAGATTGAGCAGTTGGTCAGTAAAACATCTGAACTTGATACATCT
GAAAACAAAACAGGAAGTGGAAAAATCTTTCAGAATAAAATGGCAAATGGAAATCAACCAGTAAAATCTTCTGAAGAAAA
ACGGAAGAGAAGTTTCCATGAATCTGGGAAAATGAAAATGGTCCTTCATCACTTTGATTTTTCTAGTCAAGAGTCAGGAC
CAAAAAGGAGAAAGTTTAGGCAACCAGAGGAGCACATA

Alignment

ORF - retro_ogar_1908 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.51 %
• Parental protein coverage: 56.71 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  CLTMKLFYYDEVTPPN-YQPPGFKDGDCEGVIFEGEPMYLNVGEVPTPFHTFKVKVTTERERMENIDSAI
          CLTMKLF......P...YQPPGFK.GDCEGVIFE.EPMYLNVGEVP.PFHTFKVKVT.E.E.MENIDS.I
Retrocopy CLTMKLFTTMKLYPHIIYQPPGFKGGDCEGVIFEWEPMYLNVGEVPIPFHTFKVKVTNEKEQMENIDSTI

Parental  LSPKHLKTPLKKILMDK-DDMRDKQEHYVSDDFDIETKLEDRKKNPGSSEFGEPSSFCEEDEIMRPKESP
          LSPK.LKTPL.KILMDK.DD..D.QEH...DDFDIETK.ED.KKN..SSE.GEPSSFCE..EI.RPKESP
Retrocopy LSPKYLKTPLQKILMDKNDDTQDEQEH--CDDFDIETKMEDQKKNSASSELGEPSSFCEKEEIRRPKESP

Parental  DLSISHSQVEQLVSKTSELDMSESKTRSGKIFQNKMANGNQPIKSSKEKRKRSRHESG--KMVLHHFDSS
          .L.ISHSQ.EQLVSKTSELD.SE.KT.SGKIFQNKMANGNQP.KSS.EKRKRS.HESG..KMVLHHFD.S
Retrocopy HLPISHSQIEQLVSKTSELDTSENKTGSGKIFQNKMANGNQPVKSSEEKRKRSFHESGKMKMVLHHFDFS

Parental  SQESIPKRRKFSEPKEHI
          SQES.PKRRKF..P.EHI
Retrocopy SQESGPKRRKFRQPEEHI

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_1908 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 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000000071	1 retrocopy	retro_dnov_2620,
Homo sapiens	ENSG00000143452	1 retrocopy	retro_hsap_3612,
Mus musculus	ENSMUSG00000028109	2 retrocopies	retro_mmus_1420, retro_mmus_2717,
Otolemur garnettii	ENSOGAG00000005640	1 retrocopy	retro_ogar_1908 ,
Otolemur garnettii	ENSOGAG00000015658	3 retrocopies	retro_ogar_2155, retro_ogar_3422, retro_ogar_3438,
Rattus norvegicus	ENSRNOG00000021160	1 retrocopy	retro_rnor_1772,
Tarsius syrichta	ENSTSYG00000006025	1 retrocopy	retro_tsyr_1426,