RetrogeneDB ID: retro_ogar_3242

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873753.1:20..1050(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000028253
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000031566
• Aliases: None
• Description: None

Sequence

>retro_ogar_3242
TTGAATGCTGATCTGTTCCATGGCACCCTGGACCCTGTAGAGAAAGCCCTTCAAGATGCCAAACTAGACAAGTCACAGAT
TCATGACATTGTCCTAGTAAGTGGTTCTACCCATATCCCCAAGATTCAAAAGCTTCTCCAAGACTTCTTCAATGGAAAAG
AACTGAATAAGATTATCAACCCCGATGAGGCTGTTGCCTATGGTGCAGCTGTCCAGCGGCCATCTTATCTGGTGACAAAT
CCGAGAATGTTCAGGATTTGCTACTATTAGACGTCACTCCTCTTTCTCTGGGTATTGAGACTGCTGGTGGAGTTATGACT
GTGCTCACTAAGCACAATACTACATTCCAATCAAGCAAACACAGACCTTCACTACCTACTCTGACAACCAGCCAGGTGTG
CTCATCCAGGTTTATGAAGATGAGCGTGCCATGACCAAGGATAAGAACTTGCTTGGCAAGTTTGAACTTACAGGCATACC
TCCTGCTCCCCGTGGTGTTCCTCAGATTGAAATCATTTTTGATATTGATGCCATTGGCATTCTTAATGTCTCTACTGTGG
ATAAGAGTATAGGAAAAGAAAATACCATCACTAACGACAAGAGACATTTGAGCAAGGAAGACATTGAACATATGGTTCAG
GAAGCTGAGAAGTACAAGGCTGAAGATGAGAAGCAGAGGGACAAGATTTCATCAAAAAATTCACTTGAGTCCTATGCATT
CAACATGAAAGCAACTGTTGAAGATGAGAAACTTCAAGGCAAGATCAATGATGAGGACAAACAGAAGATTCTTGACAAGT
GTAATGAAATTATCAACTGGCTTGATAAGAACCAGACTGCAGAGAAGGAAGAATTTGAACATCAGCAGAAGGAGCTGGAG
AAAGTCTGCAACCCCATCATTACCAAGTTGTACCAGAGTGCAGGCGGAATGCCAGGAGGAATGCCAGGAGGAATGCCTGG
GTGCTTCCCTGGTGGTGGTGCTCCTCTTTCTGATGGTGCTTCCTCCGGCCCCACCATTGAAGAGGTTAAT

Alignment

ORF - retro_ogar_3242 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.51 %
• Parental protein coverage: 92.02 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  LNADLFRGTLDPVEKALRDAKLDKSQIHDIVLVGGSTRIPKIQKLLQDFFNGKELNKSINPDEAVAYGAA
          LNADLF.GTLDPVEKAL.DAKLDKSQIHDIVLV.GST.IPKIQKLLQDFFNGKELNK.INPDEAVAYGAA
Retrocopy LNADLFHGTLDPVEKALQDAKLDKSQIHDIVLVSGSTHIPKIQKLLQDFFNGKELNKIINPDEAVAYGAA

Parental  VQ-AAILSGDKSENVQDLLLLDVTPLSLGIETAGGVMTVLIKRNTT-IPTKQTQTFTTYSDNQPGVLIQV
          VQ.AAILSGDKSENVQDLLLLDVTPLSLGIETAGGVMTVL.K.NTT.IP.KQTQTFTTYSDNQPGVLIQV
Retrocopy VQ<AAILSGDKSENVQDLLLLDVTPLSLGIETAGGVMTVLTKHNTT<IPIKQTQTFTTYSDNQPGVLIQV

Parental  YEGERAMTKDNNLLGKFELTGIPPAPRGVPQIEVTFDIDANGILNVSAVDKSTGKENKITITNDKGRLSK
          YE.ERAMTKD.NLLGKFELTGIPPAPRGVPQIE..FDIDA.GILNVS.VDKS.GKEN..TITNDK..LSK
Retrocopy YEDERAMTKDKNLLGKFELTGIPPAPRGVPQIEIIFDIDAIGILNVSTVDKSIGKEN--TITNDKRHLSK

Parental  EDIERMVQEAEKYKAEDEKQRDKVSSKNSLESYAFNMKATVEDEKLQGKINDEDKQKILDKCNEIINWLD
          EDIE.MVQEAEKYKAEDEKQRDK.SSKNSLESYAFNMKATVEDEKLQGKINDEDKQKILDKCNEIINWLD
Retrocopy EDIEHMVQEAEKYKAEDEKQRDKISSKNSLESYAFNMKATVEDEKLQGKINDEDKQKILDKCNEIINWLD

Parental  KNQTAEKEEFEHQQKELEKVCNPIITKLYQSAGGMPGGMPGGMPGGFPGGGAPPSGGASSGPTIEEVD
          KNQTAEKEEFEHQQKELEKVCNPIITKLYQS.............G.FPGGGAP.S.GASSGPTIEEV.
Retrocopy KNQTAEKEEFEHQQKELEKVCNPIITKLYQSXXXXXXXXXXXXXGCFPGGGAPLSDGASSGPTIEEVN

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_3242 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.

---

Parental genes homology:

Parental genes homology involve 2 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000031566	8 retrocopies	retro_ogar_1036, retro_ogar_202, retro_ogar_2137, retro_ogar_2223, retro_ogar_2693, retro_ogar_3024, retro_ogar_3242 , retro_ogar_458,
Rattus norvegicus	ENSRNOG00000034066	1 retrocopy	retro_rnor_1221,