RetrogeneDB ID: retro_ogar_3494

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873937.1:10511..11657(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NETO2
• Ensembl ID: ENSOGAG00000004721
• Aliases: None
• Description: neuropilin (NRP) and tolloid (TLL)-like 2 [Source:HGNC Symbol;Acc:14644]

Sequence

>retro_ogar_3494
CCTCTGATAGATCATTACTGTGGCATGAAAAGCCCTCCATTAATTAGATCAACAGGGAGATTCATGTGGATTAAGTTTAG
TTCTGACGAAGAGCTTGAAGGACTGGGATTTCGAGCAAAATACTCATTTATTCCAGATCCAGACTTTACTTATCTAGGAG
GTATTTTAAATCCCATTCCAGATTGCCAGTTTGAGCTCTCAGGAGCTGATGGAATAGTACGTTCTAGTCAGGTAGAACAA
GAAGAGAAAACGAAACCCAGCCAAGCAGTTGATTGCAACTGGACAATCAGAGCCACCTCACGAGCTAAGATTTATTTGAG
GTTCCTAGATTATCAAATGGAGCACTCAAATGAATGCAAGAGAAACTTCATCGCAGTCTATGATGGGAGCAGCTCTATCG
AAAACCTGAAGGCCAAGTTCTGCAGCACTGTGGGCAACGATGTGATGCTGAAGACGGGAATTGGCGTGATACGAATGTGG
GCAGATGAAGGTAGTCGGCTCAGCAGGTTCAGAATGCTCTTTACATCCTTTGTGGAGCCTCCCTGCACTGGCAGCACTTT
CTTCTGCCACAGCAACATGTGCATCAATGACTCCTTAGTCTGCAAAGGAGTCCAGAACTGCGCCTACCCTTGGGATGAGA
ATCACTGCAAAGAAAAGAAAAAATCAGGACTGTTTGAACAAATCATTAAAACTAATGGAACAATTATTGGCATTACATCA
GGGATTGTCTTGGGCCTTCTCATTATTTCTATTTTAGTACAAGTGAAACAGCCTTGAAAAAAGGTCATGGCTTGCAAAAC
TGCCTTTAGTAAGACTGGGTTCCAGGAAGTGTTTGATCCTCCTCATTATGAACTGTTTTCACTGAGGGACAAAGAGATGT
CTGCAGACCTGGCAGACCTGGCTGAAGAGCTGGACGGCTACCAGAAGGTGCAGCGCCCCTCCTCAGCCTCCCGGTATGTT
CACAACCACCACTGTGGGTCGCAGGCGCCCAGCGTCAGACAGAGCAGGACCAACCTCAGTGCCATGGAGCTTCCCTTCCG
GAATGACTTTGCACAACCACAGCCAATGAGACCGTTTAATAGCACTTTCAAGAAAAGTAGCTACACCTTCAAACAGGCCC
ATGAGTGCCCTGACCAGGCCCTAGAA

Alignment

ORF - retro_ogar_3494 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.32 %
• Parental protein coverage: 77.11 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PLIDRYCGMKSPPLIRSTGRFMWIKFSSDEELEGLGFRAKYSFIPVTDPDFTYLGGILNPIPDCQFELSG
          PLID.YCGMKSPPLIRSTGRFMWIKFSSDEELEGLGFRAKYSFIP..DPDFTYLGGILNPIPDCQFELSG
Retrocopy PLIDHYCGMKSPPLIRSTGRFMWIKFSSDEELEGLGFRAKYSFIP--DPDFTYLGGILNPIPDCQFELSG

Parental  ADGIVRSSQVEQEEKTKPGQAVDCIWTIRATPRAKIYLRFLDYQMEHSNECKRNFVAVYDGSSSIENLKA
          ADGIVRSSQVEQEEKTKP.QAVDC.WTIRAT.RAKIYLRFLDYQMEHSNECKRNF.AVYDGSSSIENLKA
Retrocopy ADGIVRSSQVEQEEKTKPSQAVDCNWTIRATSRAKIYLRFLDYQMEHSNECKRNFIAVYDGSSSIENLKA

Parental  KFCSTVANDVMLKTGIGVIRMWADEGSRLSRFRMLFTSFVEPPCTGSTFFCHSNMCINDSLVCNGVQNCA
          KFCSTV.NDVMLKTGIGVIRMWADEGSRLSRFRMLFTSFVEPPCTGSTFFCHSNMCINDSLVC.GVQNCA
Retrocopy KFCSTVGNDVMLKTGIGVIRMWADEGSRLSRFRMLFTSFVEPPCTGSTFFCHSNMCINDSLVCKGVQNCA

Parental  YPWDENHCKEKKKSGLFEQITKTHGTIIGITSGIVLVLLIISILVQVKQPRKKVMACKTAFSKTGFQEVF
          YPWDENHCKEKKKSGLFEQI.KT.GTIIGITSGIVL.LLIISILVQVKQP.KKVMACKTAFSKTGFQEVF
Retrocopy YPWDENHCKEKKKSGLFEQIIKTNGTIIGITSGIVLGLLIISILVQVKQP*KKVMACKTAFSKTGFQEVF

Parental  DPPHYELFSLRDKEMSADLADLAEELDGYQKVRRPSSASRCVHDHHCGSQAPSVRQSRTNLSAMELPFRN
          DPPHYELFSLRDKEMS.......EELDGYQKV.RPSSASR.VH.HHCGSQAPSVRQSRTNLSAMELPFRN
Retrocopy DPPHYELFSLRDKEMSXXXXXXXEELDGYQKVQRPSSASRYVHNHHCGSQAPSVRQSRTNLSAMELPFRN

Parental  DFAQPQPMDNISSEFKKLSDAAEKGHNGPSELSE
          DFAQPQPM....S.FKK.S......H..P....E
Retrocopy DFAQPQPMRPFNSTFKKSSYTFKQAHECPDQALE

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_3494 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
Loxodonta africana	ENSLAFG00000007257	1 retrocopy	retro_lafr_1140,
Otolemur garnettii	ENSOGAG00000004721	1 retrocopy	retro_ogar_3494 ,