RetrogeneDB ID: retro_ogar_1522

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873550.1:15501394..15502363(+)
• Located in intron of: ENSOGAG00000003895

Retrocopy information

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

Parental gene information

• Parental gene symbol: AKR1A1
• Ensembl ID: ENSOGAG00000007175
• Aliases: None
• Description: aldo-keto reductase family 1, member A1 (aldehyde reductase) [Source:HGNC Symbol;Acc:380]

Sequence

>retro_ogar_1522
ATGACAGCTTCCTGTGTCCTCTTGCACACTAGGCAGAAGATGCCCCTGATTGGTCTGGGTACCTGGAAGAGTCAGCCTGG
CCAGGTAAAAGCAGCTGTTAAGTATGCCCTTAGTATAGGCTACCGCCACGTTGACTGTACTGCTATCTAGGGCAATAAGA
CTGAGATTGGGGAAGCCCTGCAGGAAGATGTAGGACGAGGCAAGGCAGTGCCTTAGGAGGAGCTGTTCGTGATGTCCAAG
CTATGGAACACCAAGCACCACCCTGAGGATGTGGAGCCTGTCCTCCAGAAGACACTTGCTGACATCCAACTGGAGTATCT
GAACCTGTACCTGATGCACTGGCCTTATGCCTTTGAGCAGGGAAATAACTCCTTCTCCAAGAATGCTGATGGGACCACAT
GCTATGATTCTACCCACTACTCCTTCCAGGAGAGGTGGAAGGCCCTTGTGGCACTTGTGGCTGGTACAGGTACTGGGCCT
GTCCAACTTCAACAGTCAGCAGATTGATGATATACTCAGCATAGCTTCTGTGCGCCCAGCTGTCTTACAGGTGGAATGCC
TCCCATTCTTGGCTCAGAACGAGCTAATTGCCGTCTGCCAAACACATGGCCTGAGGTGACCGCTTATAGCCCTTGGGCTC
CTCAGATCATGCTTGGTGTGATTCTGATGAGCCTGTCCTGCTTGAGTAAGCAGTGGTCTGGCACTGACTGAAAAGCATAG
CTGATATCCAGCTCAGATCTTGCTCAGGTGGCAAGTCCGTGGAAAGTGATCTGCATCCCCCAAAGTGTCACACCTTCTTG
TATCCTTCAGAATATCCAGGTGTTTGATTTTACCCATAGCCCAGAGGACATGAAGCAGCTGGATGCCCTGAACAAAAATT
GGTGATATATTGTGCCCATGCTTACGGTGGATGGGAAGAAAGTCCCAAGGGATGCAGGGCACCCCCTGTACCCCTTTAAT
AACCCATAT

Alignment

ORF - retro_ogar_1522 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.63 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 5
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  MAVSCVLLHTGQKMPLIGLGTWKSQPGQVKAAVKYALSVGYRHIDCAAIYGNETEIGEALKEDVGPGKAV
          M..SCVLLHT.QKMPLIGLGTWKSQPGQVKAAVKYALS.GYRH.DC.AI.GN.TEIGEAL.EDVG.GKAV
Retrocopy MTASCVLLHTRQKMPLIGLGTWKSQPGQVKAAVKYALSIGYRHVDCTAI*GNKTEIGEALQEDVGRGKAV

Parental  PREELFVTSKLWNTKHHPEDVEPALRKTLADLQLEYLDLYLMHWPYAFERGDNPFPKNADGTIRYDSTHY
          P.EELFV.SKLWNTKHHPEDVEP.L.KTLAD.QLEYL.LYLMHWPYAFE.G.N.F.KNADGT..YDSTHY
Retrocopy P*EELFVMSKLWNTKHHPEDVEPVLQKTLADIQLEYLNLYLMHWPYAFEQGNNSFSKNADGTTCYDSTHY

Parental  --KETWKALEALVAK-GLVRALGLSNFNSRQIDDILSVASVRPAVLQVECHPFLAQNELIAVCQARGL-E
          ...E.WK...ALVA...LV..LGLSNFNS.QIDDILS.ASVRPAVLQVEC.PFLAQNELIAVCQ..GL.E
Retrocopy SFQERWK---ALVAL>WLVQVLGLSNFNSQQIDDILSIASVRPAVLQVECLPFLAQNELIAVCQTHGL<E

Parental  VTAYSP-LGSSDRAWRDPDEPVLLEEPVV-LALAEKHGRSPAQILLRWQVQRK-VICIPKSVTPSRILQN
          VTAYSP.LGSSD.AW.D.DEPVLLE..VV.LAL.EKH...PAQILLRWQV..K.VICIP.SVTPS.ILQN
Retrocopy VTAYSP<LGSSDHAWCDSDEPVLLE*AVV<LALTEKHS*YPAQILLRWQVRGK<VICIPQSVTPSCILQN

Parental  IQVFDFTFSPEEMKQLDALNKNWRYIVPMLTVDGKRVPRDAGHPLYPFNDPY
          IQVFDFT.SPE.MKQLDALNKNW.YIVPMLTVDGK.VPRDAGHPLYPFN.PY
Retrocopy IQVFDFTHSPEDMKQLDALNKNW*YIVPMLTVDGKKVPRDAGHPLYPFNNPY

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_1522 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 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000004549	1 retrocopy	retro_cfam_558,
Callithrix jacchus	ENSCJAG00000013633	2 retrocopies	retro_cjac_3093, retro_cjac_3334,
Echinops telfairi	ENSETEG00000006450	1 retrocopy	retro_etel_1106,
Macropus eugenii	ENSMEUG00000007370	1 retrocopy	retro_meug_1,
Otolemur garnettii	ENSOGAG00000007175	2 retrocopies	retro_ogar_1522 , retro_ogar_2582,
Otolemur garnettii	ENSOGAG00000016156	2 retrocopies	retro_ogar_1282, retro_ogar_808,
Tarsius syrichta	ENSTSYG00000005301	1 retrocopy	retro_tsyr_1409,
Tursiops truncatus	ENSTTRG00000012180	1 retrocopy	retro_ttru_751,