RetrogeneDB ID: retro_ogar_2206

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873601.1:2323023..2323878(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RBM22
• Ensembl ID: ENSOGAG00000011086
• Aliases: None
• Description: RNA binding motif protein 22 [Source:HGNC Symbol;Acc:25503]

Sequence

>retro_ogar_2206
ATGGCAACCTCTCTGGGTTCCAACACTTACAACAGGCAGAACTGGGAGGGTGCAGGCTTCTCCGTTCTCTGCCAGACCTG
TCCTGGATAAAACCCACATACCCGAATGACCAAAGAAAAATATGGGAAGGAATGCAAGACCTATGGTAGGCCATGCAGTG
TTTCAGTGGTGCCCAGGATTCTGCATGCATTTCAAGAAGACTGAAGTGTGCCAAACCTGTAGTAAATTGAAGAATGTCTG
TCAGACCTGTCTCTTAGACCTAGAGTATGGCCTGCCCATCCCTGTTCAAGATGGAGGTTTGTCTTTTAAAGATGACATGC
CAAAGTCAGATGTCAACAATGAGTACTATACACAGAACATGGAGAGAGAGATTTCTACTTCTGATGGAGCTCGGCCAGTT
GGCATGCTGGAGAAAGCCACATCTACCAGTGACATGCTGCTCAAATTGGCCCAGACTACAGCATACTACAAAAGGAATCT
GCTGCACATTTGCTCCTTCTGGGAAAAGGAGAGTGCAAGAGAGGAGAGGAGTGTCGATACAGACATGAGAAGCCTACAGG
TCCAGAAGACCCTCTTGCTGATCAGAATATTAAAGACAGATATTATGGAATCAGTGACCCTGTAGCTGATAAGTTTCTAA
AGCAGGCTTTAACTATGCCTCATCTGGACCCACCAGATGATAAAACTATCACCACACTATACGTTGGTGGCCTGGGTGAC
ACCATTACTGAGACAGATTTAAGAAGTCATTTTTACAAGTTTGGAGAGATCCGCACAATCACTGTTGTACAGAGATGGCA
TTGTGCTTTCATCCAGTTTGCCACAAGGCAGGCTGCAGAAGTGTCAGCTGACAAG

Alignment

ORF - retro_ogar_2206 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.9 %
• Parental protein coverage: 67.93 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MATSLGSNTYNRQNWEDADFPILCQTCLGENPYIRMT-KEKYGKECKICARPFTVFRWCPGVRMRFKKTE
          MATSLGSNTYNRQNWE.A.F..LCQTC.G.NP..RMT.K...G...........VF.WCPG..M.FKKTE
Retrocopy MATSLGSNTYNRQNWEGAGFSVLCQTCPG*NPHTRMT>KKNMGRNARPMVG-HAVFQWCPGFCMHFKKTE

Parental  VCQTCSKLKNVCQTCLLDLEYGLPIQVRDAGLSFKDDMPKSDVNKEYYTQNMEREISNSDGTRPVGMLGK
          VCQTCSKLKNVCQTCLLDLEYGLPI.V.D.GLSFKDDMPKSDVN.EYYTQNMEREIS.SDG.RPVGML.K
Retrocopy VCQTCSKLKNVCQTCLLDLEYGLPIPVQDGGLSFKDDMPKSDVNNEYYTQNMEREISTSDGARPVGMLEK

Parental  ATSTSDMLLKLARTTPYYKRNRPHICSFWVK-GECKRGEECPYRHEKPTDPDDPLADQNIKDRYYGINDP
          ATSTSDMLLKLA.TT.YYKRN..HICSFW.K.GECKRGEEC.YRHEKPT.P.DPLADQNIKDRYYGI.DP
Retrocopy ATSTSDMLLKLAQTTAYYKRNLLHICSFWEK<GECKRGEECRYRHEKPTGPEDPLADQNIKDRYYGISDP

Parental  VADKLLKRASTMPRLDPPEDKTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQCAFIQFATRQ
          VADK.LK.A.TMP.LDPP.DKTITTLYVGGLGDTITETDLR.HFY.FGEIRTITVVQR..CAFIQFATRQ
Retrocopy VADKFLKQALTMPHLDPPDDKTITTLYVGGLGDTITETDLRSHFYKFGEIRTITVVQRWHCAFIQFATRQ

Parental  AAEVAAEK
          AAEV.A.K
Retrocopy AAEVSADK

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_2206 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 4 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000020963	6 retrocopies	retro_cjac_1338, retro_cjac_2471, retro_cjac_3342, retro_cjac_3390, retro_cjac_3934, retro_cjac_990,
Myotis lucifugus	ENSMLUG00000009040	2 retrocopies	retro_mluc_1453, retro_mluc_153,
Monodelphis domestica	ENSMODG00000009574	1 retrocopy	retro_mdom_186,
Otolemur garnettii	ENSOGAG00000011086	1 retrocopy	retro_ogar_2206 ,