RetrogeneDB ID: retro_ogar_1793

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873565.1:12530483..12531180(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000008867
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: CCNE2
• Ensembl ID: ENSOGAG00000034667
• Aliases: None
• Description: cyclin E2 [Source:HGNC Symbol;Acc:1590]

Sequence

>retro_ogar_1793
AGATATGTTCATGACAAGCATTTTGAAGTCCTGCATTCTGACCTGGAACCACAGATGAGGTCAATACTTCTAGACTGGCT
TTTAGAGGTATCTGAAGTATACACACTTCATAGGGAAACATTTTACCTTGCCCAAGACTTCTTTGATAGATTTATGTTGA
CACAAAAGGATATAAATAAGAATATGCTTCAACTCATTGGAGCATTATTATTCATTGCTTCCAAACTTGAGGAAATCTAC
ACTCCTAAACTCCAAGAGTTTGCTTATGTCACTGATGGTGCTTGCAGTGACGAGGATATCTTAAGGATGGAACTCACAAT
ATTAAAAGGCTTTAAATTGGGAACTTTGCCCTGTAACAATCATCTGGCTAAATCTCTTTCTCCAAGTTGATGCTCTTAAA
GATGCTTCTAAAGTTCTTCTACCTCAGTATTCTCAGGAAACATTCATTCAAATAGCTCAGCTTTTAGATCTGTGTATTCT
AGCCATTGATTCATTAGAGTTCCAGTACAGAATACTGGCTGCTGCTGCCTTGTGCCATTTTACCTCCATTGAAGTGGTTA
AGAAAGCCTCAGTTTTGGAATGGGACAATATTTCAGAATGTGTAGATTGGATGGTGCCTTTTGTCAGCGTTGTAAAAAGT
ACTAGTCCAATGAAGCTGAAGACTTTTAAGAAGATTCCTAAGGAAGACAGGCATAAT

Alignment

ORF - retro_ogar_1793 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.89 %
• Parental protein coverage: 72.9 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  RYVHDKHFEVLHSDLEPQMRSILLDWLLEVSEVYTLHRETFYLAQDFFDRFMLTQKDINKNMLQLIGITS
          RYVHDKHFEVLHSDLEPQMRSILLDWLLEVSEVYTLHRETFYLAQDFFDRFMLTQKDINKNMLQLIG...
Retrocopy RYVHDKHFEVLHSDLEPQMRSILLDWLLEVSEVYTLHRETFYLAQDFFDRFMLTQKDINKNMLQLIGAL-

Parental  LFIASKLEEIYAPKLQEFAYVTDGACSEEDILRMELMILK-ALNWELCPVTIISWLNLFLQVDALKDAPK
          LFIASKLEEIY.PKLQEFAYVTDGACS.EDILRMEL.ILK.ALNWELCPVTII.WLNLFLQVDALKDA.K
Retrocopy LFIASKLEEIYTPKLQEFAYVTDGACSDEDILRMELTILK>ALNWELCPVTII-WLNLFLQVDALKDASK

Parental  VLLPQYSQETFIQIAQLLDLCILAIDSLEFQYRILAAAALCHFTSIEVVKKASGLEWDNISECVDWMVPF
          VLLPQYSQETFIQIAQLLDLCILAIDSLEFQYRILAAAALCHFTSIEVVKKAS.LEWDNISECVDWMVPF
Retrocopy VLLPQYSQETFIQIAQLLDLCILAIDSLEFQYRILAAAALCHFTSIEVVKKASVLEWDNISECVDWMVPF

Parental  VSVVKSTSPLKLKTFKKIPMEDRHN
          VSVVKSTSP.KLKTFKKIP.EDRHN
Retrocopy VSVVKSTSPMKLKTFKKIPKEDRHN

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_1793 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 6 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000013401	1 retrocopy	retro_cpor_1278,
Monodelphis domestica	ENSMODG00000007025	2 retrocopies	retro_mdom_392, retro_mdom_707,
Otolemur garnettii	ENSOGAG00000005208	1 retrocopy	retro_ogar_977,
Otolemur garnettii	ENSOGAG00000006217	2 retrocopies	retro_ogar_3309, retro_ogar_930,
Otolemur garnettii	ENSOGAG00000012885	2 retrocopies	retro_ogar_1770, retro_ogar_2766,
Otolemur garnettii	ENSOGAG00000034667	1 retrocopy	retro_ogar_1793 ,