RetrogeneDB ID: retro_ogar_2602

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873637.1:3435542..3436221(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RRM2B
• Ensembl ID: ENSOGAG00000004487
• Aliases: None
• Description: ribonucleotide reductase M2 B (TP53 inducible) [Source:HGNC Symbol;Acc:17296]

Sequence

>retro_ogar_2602
GGTTCACAAATTCTCATCGAGAATGTTCACTCAGAGATGTACAGTTTGCTAACAGACACTTACATCAGATCCCAAGAAAA
GGGATTTTTTATTTAATGTGATTGAAACAATGCCATGTGTTCAGAAAAAAGCAGATTGGACCTTGTGATGGATAGCAGAT
ATAAAATCTACTTTGGGGGAAAGAGTGGTGGCCTTTGCTGCTGTAGAAAGAATTTTCTTCTCAGGATCTTTTGCTGCTAT
ATTCTAGCTAAAGAAGAGAGTTCTTATGTCTGGACTCACTTTTTCCAATGAACTTATCAGCAGAGATGAAGGTCTGCACT
GTGACTTTGCTTACCTGATATTTTGATACTTCGTAAATAAGCCTTCAGAAGAGAGAGTCAGGGAGATCATTATTGAGGCT
GTCAAAATTGAGCAGGAGTTTTTAACAGAAGCTTTACCAGTTGTCCTCGTTGGAATGAATTGTATTTTGATGACACAGTA
TACTGAGTTTGTGGCTAACAGATTACTTGTAGAACTTGGATTCTCAAAGGTTTTCCAGGCAGAAAATCCCTTTGATTTTA
TGGAAAATATTTCTTTGCAAGGAAAAACGAATTTCTTTGAGAAATGAATTTCAGAGTACCAACATTTTGCTATTATGGCA
GAAACCATAGATAATGTCTTCACCTTGAATGCAGATTTT

Alignment

ORF - retro_ogar_2602 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.72 %
• Parental protein coverage: 64.67 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  GFQILIENVHSEMYSLLIDTYIRD-PKE-REFLFNAIETMPCVKKKADWALRWIADRKSTFGERVVAFAA
          G.QILIENVHSEMYSLL.DTYIR..P...R.FLFN.IETMPCV.KKADW.L.WIAD.KST.GERVVAFAA
Retrocopy GSQILIENVHSEMYSLLTDTYIRS<PRK<RDFLFNVIETMPCVQKKADWTL*WIADIKSTLGERVVAFAA

Parental  VEGIFFSGSFAAIFWLKKRGLMPGLTFSNELISRDEGLHCDFACLMFRYLVNKPSEERVREIIIEAVKIE
          VE.IFFSGSFAAIF.LKKR.LM.GLTFSNELISRDEGLHCDFA.L.F.Y.VNKPSEERVREIIIEAVKIE
Retrocopy VERIFFSGSFAAIF*LKKRVLMSGLTFSNELISRDEGLHCDFAYLIF*YFVNKPSEERVREIIIEAVKIE

Parental  QEFLTEALPVGLIGMNCILMKQYIEFVADRLLVELGFSKIFQAENPFDFMENISLQGKTNFFEKRVSEYQ
          QEFLTEALPV.L.GMNCILM.QY.EFVA.RLLVELGFSK.FQAENPFDFMENISLQGKTNFFEK..SEYQ
Retrocopy QEFLTEALPVVLVGMNCILMTQYTEFVANRLLVELGFSKVFQAENPFDFMENISLQGKTNFFEK*ISEYQ

Parental  RFAVMTETTDNVFTLDADF
          .FA.M.ET.DNVFTL.ADF
Retrocopy HFAIMAETIDNVFTLNADF

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_2602 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 10 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000012265	4 retrocopies	retro_chof_1118, retro_chof_1233, retro_chof_277, retro_chof_692,
Callithrix jacchus	ENSCJAG00000015923	1 retrocopy	retro_cjac_4130,
Echinops telfairi	ENSETEG00000020338	1 retrocopy	retro_etel_1219,
Gorilla gorilla	ENSGGOG00000003053	1 retrocopy	retro_ggor_3001,
Mus musculus	ENSMUSG00000022292	1 retrocopy	retro_mmus_988,
Otolemur garnettii	ENSOGAG00000004487	1 retrocopy	retro_ogar_2602 ,
Otolemur garnettii	ENSOGAG00000007075	1 retrocopy	retro_ogar_2665,
Pan troglodytes	ENSPTRG00000020481	1 retrocopy	retro_ptro_3204,
Ictidomys tridecemlineatus	ENSSTOG00000008543	2 retrocopies	retro_itri_1555, retro_itri_877,
Tupaia belangeri	ENSTBEG00000008855	1 retrocopy	retro_tbel_3693,