RetrogeneDB ID: retro_ogar_3511

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL874072.1:11071..11573(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CETN3
• Ensembl ID: ENSOGAG00000002383
• Aliases: None
• Description: centrin, EF-hand protein, 3 [Source:HGNC Symbol;Acc:1868]

Sequence

>retro_ogar_3511
ATGAGTTTAGCTCTGAGAAGTGAGCTTGTAGTAGACAAAACTAAGAGGGGAAAAAAGAAGAGAACTCACTGAGGAACAGA
AACAAGAAATTAAAGATGCTTTTGAACTATTTGATACAGACAAAGATGAAGCAATAGATTATCATGAATTAAAGGTGGCA
ATGAGAGCCTTGGGGTTTGATGTAAAAAAGGCTGATGTACTGAAGATTCTTAAAGATTATGACAGAGAAGCCACAGGGAA
AATCACCTTTGAAGATTTTAATGAAGTTGTGACAGACTGGATATTGGAAAGAGATCCACATGAAGAAATACTGAAGGCAT
TTAAGCTATTTGATGATGATGATTCGGGCAAAATAAGCTTGAGGAATTTGCGACGTGTTGCTAGAGAATTGGATGAAAAC
ATGAGTGATGAAGAACTCCGAGCTATGATAGAAGAATTTGATTAAGACGGTGATGGAGAAATTAATCAAGAGGAGTTCAT
TGCTATTATGACCGGTGACATT

Alignment

ORF - retro_ogar_3511 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.91 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MSLALRSELVVDKTKR-KKRRELTEEQKQEIKDAFELFDTDKDEAIDYHELKKVAMRALGFDVKKADVLK
          MSLALRSELVVDKTKR..KRRELTEEQKQEIKDAFELFDTDKDEAIDYHELK.VAMRALGFDVKKADVLK
Retrocopy MSLALRSELVVDKTKR>EKRRELTEEQKQEIKDAFELFDTDKDEAIDYHELK-VAMRALGFDVKKADVLK

Parental  ILKDYDREATGKITFEDFNEVAIVTDWILERDPHEEILKAFKLFDDDDSGKISLRNLRRVARELGENMSD
          ILKDYDREATGKITFEDFNEV..VTDWILERDPHEEILKAFKLFDDDDSGKISLRNLRRVAREL.ENMSD
Retrocopy ILKDYDREATGKITFEDFNEV--VTDWILERDPHEEILKAFKLFDDDDSGKISLRNLRRVARELDENMSD

Parental  EELRAMIEEFDKDGDGEINQEEFIAIMTGDI
          EELRAMIEEFD.DGDGEINQEEFIAIMTGDI
Retrocopy EELRAMIEEFD*DGDGEINQEEFIAIMTGDI

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_3511 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 7 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Dipodomys ordii	ENSDORG00000007233	1 retrocopy	retro_dord_30,
Otolemur garnettii	ENSOGAG00000002383	1 retrocopy	retro_ogar_3511 ,
Otolemur garnettii	ENSOGAG00000005301	1 retrocopy	retro_ogar_236,
Ochotona princeps	ENSOPRG00000002381	1 retrocopy	retro_opri_17,
Procavia capensis	ENSPCAG00000006854	1 retrocopy	retro_pcap_403,
Pteropus vampyrus	ENSPVAG00000017925	1 retrocopy	retro_pvam_19,
Tupaia belangeri	ENSTBEG00000001992	2 retrocopies	retro_tbel_4470, retro_tbel_4732,