RetrogeneDB ID: retro_ogar_1174

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873538.1:66222..67123(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000002202
• Aliases: None
• Description: None

Sequence

>retro_ogar_1174
GGCATGCATTCTTCATTCCATCAGTAGCAAGAAGGAAAGGCAGCAATGAGTGATATCCAAGTGGACTCTCCGGTAAGATT
CAGTCCTTGTGCCATTCCACCATATCATCAAAGAGATACTTTTCATAAACAAGACCAAACCCAGGTTATTGCAGAAAAAG
AGAGAAAACTTCCAAAGGGAAGAATGGAGTGGCGCAGGCAGGATGGGACATCAGGGATCTGGTTCAAGATCACAATTCCA
TTTGGCATAAAATATGATGAGCAGTGGCTGCTGGATTTGATTCAGAGCCAATTGCAGTGTCCCTTTCACTCTGTTTGAGT
TTCACCATGAGAAAATGAAGGCCCACTTCTTTGTGGAGAATGCCAGCATTGCCTTCGTACTGAAGAGCATCAGTGGCAAC
ATTTGGGACCAGGATAACGAAAGAATATCAGTCTTTGTCAGTCCCTCTGACATGCCCCTCTGTGCAGAAGGAGCTGAACT
TGAAAAAGGTAGAGCAGCTGACCATGAACAAACATGATACCTCCCAGGAAGCACTTGACACCCAGAGACTATGCTTTGTC
ACAGACTTGAGGACACGTGATATCATAATGGCACCAAATCCCGGAAAGAGTATGGCTGTATCCTGCACATAGAGGAAGAG
AACATGTCCCAGCTTTTGCCTTTGAACATTAGCAACATCAAACCCTATCAGCTGCCCAGTGTTATGGCAGAAGTCTCCAA
CATCAACAACCTGAATGAGGTGAAGTCTGCAGAGGAGCTGGACAAGGAGAAAGGGTTGGAGCCAGAAGAGAGATGTATGG
ACAGAAATGTCCCATGCACCACCTTCCCAGATAAGTCCAGCAACATAAACTCCATCTTGGAATTGTTCCCCAAGTTATTA
GGCCTAAATGGCCAGGAGTCC

Alignment

ORF - retro_ogar_1174 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.63 %
• Parental protein coverage: 53.27 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  GMNPSFHLQQEGNAATSDMQVDSPVRFNPYAIPPYHRRGTIHKQDQTQVITEREKKFPEGKMEWCRQDGT
          GM..SFH..QEG.AA.SD.QVDSPVRF.P.AIPPYH.R.T.HKQDQTQVI.E.E.K.P.G.MEW.RQDGT
Retrocopy GMHSSFHQ*QEGKAAMSDIQVDSPVRFSPCAIPPYHQRDTFHKQDQTQVIAEKERKLPKGRMEWRRQDGT

Parental  SGNWFKITIPFGIKYDEKWLLDLIQSQ-CSVPFTPFEFHYEKMQAHFFVESASIAFALRSISGNIWDQDN
          SG.WFKITIPFGIKYDE.WLLDLIQSQ.CSVPFT.FEFH.EKM.AHFFVE.ASIAF.L.SISGNIWDQDN
Retrocopy SGIWFKITIPFGIKYDEQWLLDLIQSQ>CSVPFTLFEFHHEKMKAHFFVENASIAFVLKSISGNIWDQDN

Parental  ERISIIVT-PSDMPHFVQKDLKKAGQVILTMNKYDTSQEALDIQKLRFDTDLRTHDVRMAPNPGKSMAVS
          ERIS..V..P...P..VQK.L.......LTMNK.DTSQEALD.Q.L.F.TDLRT.D..MAPNPGKSMAVS
Retrocopy ERISVFVS>PLTCPS-VQKELNLKKVEQLTMNKHDTSQEALDTQRLCFVTDLRTRDIIMAPNPGKSMAVS

Parental  -LHIEEEKMSQLLPLNMSSIKPYQLPGIMAEASNINTLNEVKSAEEMDKEKGLEPEEICVDRNDPCTTFP
          .LHIEEE.MSQLLPLN.S.IKPYQLP..MAE.SNIN.LNEVKSAEE.DKEKGLEPEE.C.DRN.PCTTFP
Retrocopy <LHIEEENMSQLLPLNISNIKPYQLPSVMAEVSNINNLNEVKSAEELDKEKGLEPEERCMDRNVPCTTFP

Parental  DKSSNINSILELFPKLLCLDVQES
          DKSSNINSILELFPKLL.L..QES
Retrocopy DKSSNINSILELFPKLLGLNGQES

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_1174 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000002202	1 retrocopy	retro_ogar_1174 ,
Sarcophilus harrisii	ENSSHAG00000006407	1 retrocopy	retro_shar_58,