RetrogeneDB ID: retro_ogar_1195

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873538.1:12610641..12611273(-)
• Located in intron of: ENSOGAG00000016277

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000003253
• Aliases: None
• Description: None

Sequence

>retro_ogar_1195
ATGTATCTTCTGGGACCTGCCTTGAAGACCTCTTCAATTTCTGTTCAAGAAGATTCACAATGAAAACTGTATGTATGTTA
GCTGACCAGATGATCAGTAGAATTGAATATGTGCATAAAAAGAATTTTATATACGGAGATATTAAACCAGATAACTTCCT
AATGGGTATTGGGCATTACTGTAATAAGTTATTCCTTGGTGATTTTGGTTTGGCCAAAAAGTACAGAGACAACAGGATAA
GACAATACATACCATACAAAGAAAATAAAAACCTCACTGGCACTTTTCGATATGCTAGCATCAGTGCCCATCTTGGTATT
GAGCAGAGTCCCCGAGATGACATGGAATCATTAGGATATGTTTTGATGTATTTTAATAGAACCAGCCTGCATGGCAAGGA
CCAAAGGCTGCAACAAAGAAGCAAAAATATGAAAAGATTTAGTGAAAAGAAGATGTCTACTCCTGTTGAAGTTTTATGTA
AGGGGTTTCCTGCAGAATTTGCCATGTACTTAGGCTATTGTTGTGGGCTGTGCTTTGAAGAAGCCCCAGATTATGTGTAT
CTGTGGCAGCTATTCTGCATTCTTTTCAGGACCCTGAACTACCAATATGTCTACACATTTGATTGGACAATG

Alignment

ORF - retro_ogar_1195 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.45 %
• Parental protein coverage: 89.41 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MDLLGPSL-EDLFNFCSRRFTMKTVLMLADQMISRIEYVHTKNFIHRDIKPDNFLMGIGRHCNKLFLIDF
          M.LLGP.L.EDLFNFCSRRFTMKTV.MLADQMISRIEYVH.KNFI..DIKPDNFLMGIG..CNKLFL.DF
Retrocopy MYLLGPAL<EDLFNFCSRRFTMKTVCMLADQMISRIEYVHKKNFIYGDIKPDNFLMGIGHYCNKLFLGDF

Parental  GLAKKYRDNRTRQHIPYREDKNLTGTARYASINAHLGIEQSRRDDMESLGYVLMYFNRTSL-PWQGLKAA
          GLAKKYRDNR.RQ.IPY.E.KNLTGT.RYASI.AHLGIEQS.RDDMESLGYVLMYFNRTSL..WQG.KAA
Retrocopy GLAKKYRDNRIRQYIPYKENKNLTGTFRYASISAHLGIEQSPRDDMESLGYVLMYFNRTSL<AWQGPKAA

Parental  TKKQKYEKI-SEKKMSTPVEVLCKGFPAEFAMYLNYCRGLRFEEAPDYMYLRQLFRILFRTLNHQYDYTF
          TKKQKYEKI.SEKKMSTPVEVLCKGFPAEFAMYL.YC.GL.FEEAPDY.YL.QLF.ILFRTLN.QY.YTF
Retrocopy TKKQKYEKI>SEKKMSTPVEVLCKGFPAEFAMYLGYCCGLCFEEAPDYVYLWQLFCILFRTLNYQYVYTF

Parental  DWTM
          DWTM
Retrocopy DWTM

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_1195 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 14 parental genes, and 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000005326	2 retrocopies	retro_btau_1662, retro_btau_49,
Canis familiaris	ENSCAFG00000018286	1 retrocopy	retro_cfam_1887,
Gorilla gorilla	ENSGGOG00000013926	3 retrocopies	retro_ggor_1178, retro_ggor_742, retro_ggor_984,
Otolemur garnettii	ENSOGAG00000003253	2 retrocopies	retro_ogar_1195 , retro_ogar_825,
Otolemur garnettii	ENSOGAG00000008746	1 retrocopy	retro_ogar_1351,
Otolemur garnettii	ENSOGAG00000011587	1 retrocopy	retro_ogar_246,
Otolemur garnettii	ENSOGAG00000014866	1 retrocopy	retro_ogar_264,
Otolemur garnettii	ENSOGAG00000016063	1 retrocopy	retro_ogar_47,
Otolemur garnettii	ENSOGAG00000016785	1 retrocopy	retro_ogar_2000,
Sorex araneus	ENSSARG00000011446	1 retrocopy	retro_sara_518,
Sarcophilus harrisii	ENSSHAG00000015356	1 retrocopy	retro_shar_834,
Sus scrofa	ENSSSCG00000014435	1 retrocopy	retro_sscr_560,
Ictidomys tridecemlineatus	ENSSTOG00000022141	1 retrocopy	retro_itri_1378,
Drosophila melanogaster	FBgn0015024	4 retrocopies	retro_dmel_10, retro_dmel_32, retro_dmel_40, retro_dmel_67,