RetrogeneDB ID: retro_ogar_590

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873524.1:17775565..17776483(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000031722
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: RTN4IP1
• Ensembl ID: ENSOGAG00000012703
• Aliases: None
• Description: reticulon 4 interacting protein 1 [Source:HGNC Symbol;Acc:18647]

Sequence

>retro_ogar_590
CAAGGTGGTTATGAAGCTACAGCTTTAAATATGAAGCATGATCCTTTACATATTAAAACCAGCGGAGACAAGTTTCCACT
GACTCTGGGTCGGGATGTCTCTGGTGTGGTGATGGAATGTGGGCTTGACGTGAAGTACTTCAAACCTGGAGATGAGGTCT
GGGCTGCAGTTCCTCCTTGGAAACAAGACACTCTCTCAGAGTTTGTTGTGGTCAGTGGGAATGAGATCTCTCACAAACCC
AAAACACTTACTCATACTCAAGCTGCCTCCTTGCCGTATGTGGCTCTCACAGCCTGGTCTGCCATAAACAAGGTTGGCGG
CCTGAATGATAAGAATTGCAAAGGAAAACGTGCTTTAATCTTGGGTGCTGCAGGTGGAGTGGGTACCTTTGCTATACAGG
TGATGAAAATATGGGATGCCCATGTGACAGCAGTTTGCTCTCAGGATGCCAGCGAACTTGTAAGGAAGCTTGGGGCAGAT
GATGTCATTGATTACAAAGCTGGAGATGTGGAAAAGCAGTTGAAATCCTTAAAACCCTTTGATTTTATCCTTGATAATGT
TGGTGTATCCACTGAAACATGGGCTCTAAATTACCTCAAGAAATGGTCAGGAGCCACCTATGTGACGTTGGTGACTCCCT
TTCTCCTGAACATTGACAAACTGGGCATAGCAGATGGCATGTTGCAGACAGGAGTCACCGTGGGTTCTAAGGCACTGAAG
CATTTCTGGAGAGGAGTCCATTATCCCTGGGCCTCTTTCATGGTCAGTGGCCCATGTCTAGATGAAATTGCAGAACTGGT
GGATGCAGGAAAGATTTAGCCAGTTATTGAACAAACGTTCCCTTTTTCTAAAATTCCAGAAGCCTTCCAGAAGGCGGAGA
GAGGACATGCACCAGGAAAGACTGTAATTAATGTCGTT

Alignment

ORF - retro_ogar_590 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.48 %
• Parental protein coverage: 77.27 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RSGYGATALNMKRDPLHIKTSGNEFPLTLGRDVSGEVMECGLDVKYFKPGDEVWAAVPPWKQGTLSEFVV
          ..GY.ATALNMK.DPLHIKTSG..FPLTLGRDVSG.VMECGLDVKYFKPGDEVWAAVPPWKQ.TLSEFVV
Retrocopy QGGYEATALNMKHDPLHIKTSGDKFPLTLGRDVSGVVMECGLDVKYFKPGDEVWAAVPPWKQDTLSEFVV

Parental  VSGNEVSHKPKTLTHTQAASLPYVALTAWSAINKVGGLNDKNCKGKRALILGAAGGVGTFAIQVMKAWDA
          VSGNE.SHKPKTLTHTQAASLPYVALTAWSAINKVGGLNDKNCKGKRALILGAAGGVGTFAIQVMK.WDA
Retrocopy VSGNEISHKPKTLTHTQAASLPYVALTAWSAINKVGGLNDKNCKGKRALILGAAGGVGTFAIQVMKIWDA

Parental  HVTAVCSQDASELVRKLGADDIIDYKAGDVEEQLKSLKPFDFILDNVGGSTETWALNYLKKWSGATYVTL
          HVTAVCSQDASELVRKLGADD.IDYKAGDVE.QLKSLKPFDFILDNVG.STETWALNYLKKWSGATYVTL
Retrocopy HVTAVCSQDASELVRKLGADDVIDYKAGDVEKQLKSLKPFDFILDNVGVSTETWALNYLKKWSGATYVTL

Parental  VTPFLLNMDKLGVADGMLQTGVTVGSKALKHFWRGVHYRWAFFMASGPCLDEIAELVDAGKIQPVIEQTF
          VTPFLLN.DKLG.ADGMLQTGVTVGSKALKHFWRGVHY.WA.FM.SGPCLDEIAELVDAGKI.PVIEQTF
Retrocopy VTPFLLNIDKLGIADGMLQTGVTVGSKALKHFWRGVHYPWASFMVSGPCLDEIAELVDAGKI*PVIEQTF

Parental  PFSKVPEAFRKVERGHARGKTVINVV
          PFSK.PEAF.K.ERGHA.GKTVINVV
Retrocopy PFSKIPEAFQKAERGHAPGKTVINVV

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_590 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000130347	1 retrocopy	retro_hsap_1030,
Gorilla gorilla	ENSGGOG00000008254	1 retrocopy	retro_ggor_814,
Nomascus leucogenys	ENSNLEG00000013349	1 retrocopy	retro_nleu_908,
Otolemur garnettii	ENSOGAG00000012703	1 retrocopy	retro_ogar_590 ,
Pongo abelii	ENSPPYG00000016882	1 retrocopy	retro_pabe_863,
Pan troglodytes	ENSPTRG00000018461	1 retrocopy	retro_ptro_705,