RetrogeneDB ID: retro_ogar_1053

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873534.1:18008354..18009176(-)
• Located in intron of: ENSOGAG00000007764

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000001349
• Aliases: None
• Description: None

Sequence

>retro_ogar_1053
TCTATGTTTGCACACTAGTATAAGTGGAAGGCAAAACACAGAAGATGACATGGTATGCATGAAGAAGGATGGAGAAGAGC
ATTGTGGGACAAGAATATAAAAATGATTGAACTACAAAATCAGGAATGCAGCCAAGAGAAACATGGCTTCACAACAGCAA
TAAATGTCTTTGGTCACATGACCAATGAAGAATTCAGGTCAAGTGATGAATGGCTTTCGAAACCAGAAGCACAAGAAGGG
AAAAGTGTTCCAAAGAGTCTTCATTTCTTGAGGTCCTAAAATCTATGGACTAGAGAGAGAAAAGCTATGTGACTCCTGTC
AGGAATCAAGATCACTGTAGTTCCTGTTGGGCTTTTAGTGCAATGGGTGCCCTTGACGACAGATGTTCTAGAAAACTGGC
AAACTTATCTCACTGAGTAAGCAGAACCTGGTGGACTGCTCAGAGCCTCAAGGCAACGAAGGCTGCGATGGTAGCCTAAT
GGACTACGCCTTCTAGTATAGTAAGGAGAATGGAGGTCTGGACTCTGAGGAATCTTATCGATACGATGCAAGAGATGAAT
CCTGTCAGTATAGGCCTGAGTATTCTGTTGCTAATGACACTGACTTCATGGATATCCCTAAAGAGGAGAAGGCCCTGATG
AAGGCAGTAGCAACAGAGGGGCTCATCTCTGTTGCTATTTATGCAGGCCATGAGTCTTTCCAGTTCTATAAAGAAGGCAT
TTATTTTGAGCCAAACTGCAGCAGTGAAGATGTGGATCATGGTGTTCTGGTGGTTGCTACATATTTAATAAAACAGAACT
GGGTAACAATTCTGGGTATTTA

Alignment

ORF - retro_ogar_1053 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.06 %
• Parental protein coverage: 82.34 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  SLNAHWYRWKAKHRKLYGMREEGWRRAVWEKNMKMIEVHNQEYSQGKHGFTMAMNAFGDMTNEEFR-QVM
          S..AH.Y.WKAKHR...GM.EEGWRRA.W.KN.KMIE..NQE.SQ.KHGFT.A.N.FG.MTNEEFR.QVM
Retrocopy SMFAH*YKWKAKHRR*HGMHEEGWRRALWDKNIKMIELQNQECSQEKHGFTTAINVFGHMTNEEFR>QVM

Parental  NGFRNQKHKKGKVFQ-EPSFLEVPKSVDWREKGYVTPVKNQGQCGSCWAFSATGALEG-QMFRKTGKLIS
          NGFRNQKHKKGKVFQ.E.SFLEV.KS.D.REK.YVTPV.NQ..C.SCWAFSA.GAL...QMF.KTGKLIS
Retrocopy NGFRNQKHKKGKVFQ>ESSFLEVLKSMD*REKSYVTPVRNQDHCSSCWAFSAMGALDD<QMF*KTGKLIS

Parental  LSEQNLVDCSRPQGNEGCDGGLMDYAFQYIKENGGLDSEESYPYDAMKDESCKYRPEYSVANDTGFVDIP
          LS.QNLVDCS.PQGNEGCDG.LMDYAF.Y.KENGGLDSEESY.YDA..DESC.YRPEYSVANDT.F.DIP
Retrocopy LSKQNLVDCSEPQGNEGCDGSLMDYAF*YSKENGGLDSEESYRYDA-RDESCQYRPEYSVANDTDFMDIP

Parental  KEEKALMKAVATVGPISVAIDAGHESFQFYKEGVYFEPECSSDNVDHGVLVVG-YGYEETESDNNKFWL
          KEEKALMKAVAT.G.ISVAI.AGHESFQFYKEG.YFEP.CSS..VDHGVLVV..Y....TE..NN...L
Retrocopy KEEKALMKAVATEGLISVAIYAGHESFQFYKEGIYFEPNCSSEDVDHGVLVVA<YIFNKTELGNNSGYL

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_1053 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 8 parental genes, and 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000007548	8 retrocopies	retro_chof_1227, retro_chof_1332, retro_chof_1345, retro_chof_141, retro_chof_1464, retro_chof_2392, retro_chof_383, retro_chof_424,
Dasypus novemcinctus	ENSDNOG00000012037	1 retrocopy	retro_dnov_2387,
Macropus eugenii	ENSMEUG00000002168	2 retrocopies	retro_meug_1349, retro_meug_1567,
Macropus eugenii	ENSMEUG00000014293	1 retrocopy	retro_meug_1873,
Macropus eugenii	ENSMEUG00000016209	2 retrocopies	retro_meug_159, retro_meug_1727,
Monodelphis domestica	ENSMODG00000002844	1 retrocopy	retro_mdom_1101,
Otolemur garnettii	ENSOGAG00000001349	2 retrocopies	retro_ogar_1053 , retro_ogar_1373,
Petromyzon marinus	ENSPMAG00000003453	1 retrocopy	retro_pmar_7,