RetrogeneDB ID: retro_ogar_1829

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873568.1:2311403..2312234(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000009825
• Aliases: None
• Description: None

Sequence

>retro_ogar_1829
GTAAACCTGGCCAGCAGCATGCCAGTCACAGCCAACCATCTTCTGAACAAGGATGACAAGGACTGTGAGCGTGAAGAGCT
GGTGCCTGGGGCCCAGCTGTGCCATGTAGTTACTGTGACTAGTGTGGATAAGACCATATATAGCCTATAGCACCCCTCTG
TGCTGAGCAGCAGCCTGTCTACAGACAAACAAACTCAAGCACCTTCTAAGAGGAGTCTATTACCTGTAAGGTCCAAAGAA
GTCCATGTTTTCAGACATCTTCATTCAGGAGGTTTAGGGAATAATGCTGTGAAAGTCACCAAACTGAGATGAGAGAATGG
GCAAAAAAGGCTGCAGACACCACCACCAGTAGGAATGTCAAAAAGGGCTGCAAACTACCATGAAAGCAAAAATCAGAGGG
AGAGCTCAAGGATAAGAACCAGCTCTTAGAGGCCATCAACAAGCAGTTGCACCAATAGTTGACAGAAATTCAAGAGAGCT
GAAGGACCTGACCCAGAAAGTAGAGCTGCTGGAGAAGTTTCAAGACAACTATCTGGCAATTTTTGAGTGTGAAGGCCTAA
TCCCAGCTTTAGACAATGAGACCCCGGCATCACAGCAAGAATCCACAACAGACCACATGGACTCTATGTTGATGTTGGAA
ACTCTGCAAGATGAGCTGAAGCTTTTAAACGACACAGTCAGAAAGCAGATAGAGGGGTTACAGGCCTTAAAGGTAAAGTT
GAAGATGAAAGGGGAAGAAAGGGTCCTATTCCTAGAACAGTGACCTTTATTTAACTATCAACTAAATGATTTTATAACAG
CCATTGAGGAAATGGGAAGTTATTAGAAATG

Alignment

ORF - retro_ogar_1829 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.5 %
• Parental protein coverage: 87.46 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  VDLAGCVPVAAECLLSKGDEDYKQEELAPGAQPCCPVTMTSVDKTVYCLQAPSMPSDSLPAADTQTQGTS
          V.LA...PV.A..LL.K.D.D...EEL.PGAQ.C..VT.TSVDKT.Y.L..PS..S.SL...D.QTQ..S
Retrocopy VNLASSMPVTANHLLNKDDKDCEREELVPGAQLCHVVTVTSVDKTIYSL*HPSVLSSSL-STDKQTQAPS

Parental  KKSLLPVRSKEVLVSKHLHSGGLENDVAKITKSRRENRQM-KVADTANRRNVKKGFKPPCKQKSEEELKD
          K.SLLPVRSKEV.V..HLHSGGL.N...K.TK.R.EN.Q..K.ADT...RNVKKG.K.P.KQKSE.ELKD
Retrocopy KRSLLPVRSKEVHVFRHLHSGGLGNNAVKVTKLR*ENGQK<KAADTTTSRNVKKGCKLP*KQKSEGELKD

Parental  KNQVLEAINKQLHQKLTETQG-ELKDLTQKVELLEKFQDNCLAILESKGLIPALDSETLASQQEATTDHT
          KNQ.LEAINKQLHQ.LTE.Q..ELKDLTQKVELLEKFQDN.LAI.E..GLIPALD.ET.ASQQE.TTDH.
Retrocopy KNQLLEAINKQLHQ*LTEIQE<ELKDLTQKVELLEKFQDNYLAIFECEGLIPALDNETPASQQESTTDHM

Parental  DSMLLLETLKDELKLFNETAKKQMEELQALKVKLKMKEEERAQFLEQRPLFNCQLNDFTATIKEM-EQLL
          DSML.LETL.DELKL.N.T..KQ.E.LQALKVKLKMK.EER..FLEQ.PLFN.QLNDF...I.EM...LL
Retrocopy DSMLMLETLQDELKLLNDTVRKQIEGLQALKVKLKMKGEERVLFLEQ*PLFNYQLNDFITAIEEM<GKLL

Parental  EM
          EM
Retrocopy EM

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_1829 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 6 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000032340	2 retrocopies	retro_btau_1217, retro_btau_274,
Choloepus hoffmanni	ENSCHOG00000007085	3 retrocopies	retro_chof_1378, retro_chof_2237, retro_chof_504,
Monodelphis domestica	ENSMODG00000000464	1 retrocopy	retro_mdom_1200,
Otolemur garnettii	ENSOGAG00000009825	1 retrocopy	retro_ogar_1829 ,
Tupaia belangeri	ENSTBEG00000012043	4 retrocopies	retro_tbel_2696, retro_tbel_3958, retro_tbel_4092, retro_tbel_787,
Tursiops truncatus	ENSTTRG00000010577	1 retrocopy	retro_ttru_240,