RetrogeneDB ID: retro_ogar_602

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873524.1:35137307..35137878(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TOR1B
• Ensembl ID: ENSOGAG00000009763
• Aliases: None
• Description: torsin family 1, member B (torsin B) [Source:HGNC Symbol;Acc:11995]

Sequence

>retro_ogar_602
CATTCACCACAGAGCACCTGGTGTGAGGACTAGCTACAGAAATGAGTTAGTGCTAATATGAGTGCTTGTGCAAACTCTGT
TTTTATATTTGACAAGATGGATAAATTGCACCCTAGGATCACTGATGCAATCAAGCCATTTCTAGACTACTGTGAGCAAG
TGGACGGAGTGTCTTACCACAAAGCCATCTTCATCTTCCTCAATAATGCAGGTAGGGACCTTATAACTAAGATGGCTCTT
GACTTTTGGTGGACAGGAAGAAAGAGGTGGAACATTCAGCTGAAGGACCTGGAACCTGTGCTGTCTGTTGGGGATCTTCA
AAAATAAACACAGTGACATGTGGTACAGTGGACTGATCAACAGAAACCTCATTGATTACTTCATCTCCTTCCTGCCCCTG
GAGTGCAGACACATGAAGATGTGTGTGAGGTCTGAAATGAAGGCCTGAGGCTGTGCCATAGATGAAGACGTTGTGACAAG
AGTGGCAGATGAAATGACGTTTTTCCCCAAAGATGAGAAAATCTACTCAGACAAAGGCTGTAAGGCTGTGCAATCACAGC
TAGATTTCCAC

Alignment

ORF - retro_ogar_602 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.01 %
• Parental protein coverage: 56.21 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  HEQKIKLYQDQLQKWIRGNVSACANSVFIFDEMDKLHPGIIDAIKPFLDYYEQVDGVSYRKAIFIFLSNA
          H........D.LQK....N.SACANSVFIFD.MDKLHP.I.DAIKPFLDY.EQVDGVSY.KAIFIFL.NA
Retrocopy HSPQSTWCED*LQK*VSANMSACANSVFIFDKMDKLHPRITDAIKPFLDYCEQVDGVSYHKAIFIFLNNA

Parental  GGDLITKTALDFWRAGRKREDIQLKDLEPVLSVG-VFNNKHSGLWHSGLIDRNLIDYFIPFLPLEYRHVK
          G.DLITK.ALDFW..GRKR..IQLKDLEPVLSVG..F.NKHS..W.SGLI.RNLIDYFI.FLPLE.RH.K
Retrocopy GRDLITKMALDFWWTGRKRWNIQLKDLEPVLSVG>IFKNKHSDMWYSGLINRNLIDYFISFLPLECRHMK

Parental  MCVRAEMKARGSAVDEDVVTRVADEMTFFPKDEKIYSDKGCKTVQSRLDFH
          MCVR.EMKA.G.A.DEDVVTRVADEMTFFPKDEKIYSDKGCK.VQS.LDFH
Retrocopy MCVRSEMKA*GCAIDEDVVTRVADEMTFFPKDEKIYSDKGCKAVQSQLDFH

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_602 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000020343	1 retrocopy	retro_cjac_1349,
Otolemur garnettii	ENSOGAG00000009763	1 retrocopy	retro_ogar_602 ,
Ictidomys tridecemlineatus	ENSSTOG00000004915	1 retrocopy	retro_itri_396,