RetrogeneDB ID: retro_ogar_2542

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873632.1:6203222..6204696(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000010377
• Aliases: None
• Description: None

Sequence

>retro_ogar_2542
ATGCACAAAACTACCTCCCAAAGACTTGTCCTAAGTCCCTTACCTCAAAAAATTAAGAGTATAATGGAAGATAGCCCAAT
CTTATCAAATTGGACAAATGACAACAAACAAAAGATGAAGCATGACTTTTCCTGTGAACTGTACAGAATGTCTACATATT
CAACTTTCCCCGCTGGTGTTCCTATCTCAGGAAGGAGTCTTGCTCATGCTGGCTTTTATTACACAGGTGTGAATGACAAG
GTCAAATGCTTCTGTTATGGCCTGATGCTGGATAACTGGAAACAAGGAGACAATCCTATTGAAAAGCATAAACAGCTATA
TCCTAGCTGTAGCTTTATTCAAAATCTGGTTTCAGCTAGTCTGGGATCCAGTGAGTATTCTCCAGTGAGAAGCAGTTTTC
CACATTCTTTATCTCCCACTTTGGAACATGGTGGCTCATTCAGTGGTTCTTATTCCAACATTTCACCAAACCCTCTCAAT
TCTAGAGCAGTCGAAGACTTCTCTGCATTGAGGACTAACCCCTACAGTTATGCAATGAGTACTGAAGAAGCCAGATTTCT
TACTTACCGTTTGTGGCCCTTAACCTTTCTGTCACCATCAGAATTGGCAAGAGCTGGTTTTTATTATATAAGGACCCAGA
GATAGGGTAGCCTGCTTTGCTGGTGGTGGGAAGAGGCTAAGTAACTGGGAACCAAAGGATGATGCTGTGTCAGAACACCG
GAGACATTTTCTCAACTGTCCATTTTTGGAAAATTCTCTAGAAACTCTGAGGTTTAGCATTTCAAATCTGAGCATGTAGA
CATATGCAGCTCGAATGAGAACATTTACGTATTGGCCATCTAGTGTTCCAGTTCGGCCTGAGCAGCTTGCAAGTGCTGGT
TTTTATTATGTGGGTTGCAATGATGATGTCAACTGCTTTTGTTGTGATTGTGGCTTGAGGTGTTGGGAAATTGAAGATGA
TCCATGGGTAGAACATGCCAAGTGGTTTCCAAGGTGTGAGTTCTTGATACACGTGAAAGGGCAAGGGTTTGTTGATGAGA
TTCAAGGTTGATATCCTCATCTTCTTGAACAGCTATTGTCATCTTCAGATACTCCTGGAGATGAAAATGCTGATCCACTA
ATTGTTCATTTTGGATCTGGAGAAAGTGCTTCAGAAGATGCAGTCATGATGAATACACCTGTGGTGAAATCTGCCTTGGA
AATGGGCTTTAGTAGAAGCCTGGTAAGACAGACAGTTCAGAGCAAAATCCTAACTACTGGAGAGAACTACAAAACAGTCA
ATGATATTGTATCAGCTCTTCTGAATGCTGAAGATGAAAAAAGAGAAGAGAAAAAGGAAAGACAAGCTGAAGAAATGGCA
TCAGATGACTTGTCATTAATTCAGAAGCATAGAATAGCTCTCTTTCAGCGGTTGACGTATGTGCCTCCTATCCTGAATAA
TCTTTAAAAGGCCAATGTACAAAAAAAAAAAGAG

Alignment

ORF - retro_ogar_2542 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.28 %
• Parental protein coverage: 79.61 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MHKTTSQRLVLSPLPQKIKSIMEDSPILSNWTNDNKQKMKYDLSCELYRMSTYSTFPTGVPVSERSLARA
          MHKTTSQRLVLSPLPQKIKSIMEDSPILSNWTNDNKQKMK.D.SCELYRMSTYSTFP.GVP.S.RSLA.A
Retrocopy MHKTTSQRLVLSPLPQKIKSIMEDSPILSNWTNDNKQKMKHDFSCELYRMSTYSTFPAGVPISGRSLAHA

Parental  GFYYTGVNDKVKCFCCGLMLDNWKQGDSPIEKHKQLYPSCSFVQNLVSASLGSTSKNISPVRSSFAHSLS
          GFYYTGVNDKVKCFC.GLMLDNWKQGD.PIEKHKQLYPSCSF.QNLVSASLGS.....SPVRSSF.HSLS
Retrocopy GFYYTGVNDKVKCFCYGLMLDNWKQGDNPIEKHKQLYPSCSFIQNLVSASLGSSE--YSPVRSSFPHSLS

Parental  PTLEHGGSFGGSYSNLSPNPLNSRAVEDVSALRTNPYSYAMSTEEARFLTYRLWPLTFLSPSELARAGFY
          PTLEHGGSF.GSYSN.SPNPLNSRAVED.SALRTNPYSYAMSTEEARFLTYRLWPLTFLSPSELARAGFY
Retrocopy PTLEHGGSFSGSYSNISPNPLNSRAVEDFSALRTNPYSYAMSTEEARFLTYRLWPLTFLSPSELARAGFY

Parental  YI-GPGDRVACFACGGK-LSNWEPKDDAMSEHRRHFPNCPFLENSLETLRFSISNLSMQTYAARMRTFMY
          YI.GP.DRVACFA.GGK.LSNWEPKDDA.SEHRRHF.NCPFLENSLETLRFSISNLSM.TYAARMRTF.Y
Retrocopy YI>GPRDRVACFAGGGKRLSNWEPKDDAVSEHRRHFLNCPFLENSLETLRFSISNLSM*TYAARMRTFTY

Parental  WPSSVPVRPEQLASAGFYYVGRNDDVKCFCCDGGLRCWEFGDDPWVEHAKWFPRCEFLIRMKGQGFVDEI
          WPSSVPVRPEQLASAGFYYVG.NDDV.CFCCD.GLRCWE..DDPWVEHAKWFPRCEFLI..KGQGFVDEI
Retrocopy WPSSVPVRPEQLASAGFYYVGCNDDVNCFCCDCGLRCWEIEDDPWVEHAKWFPRCEFLIHVKGQGFVDEI

Parental  QGRYPHLLEQLLSTSDTPGDENADPPIVHFGSGESASEDAVMMNTPVVKSALEMGFSRSLVRQTVQSKIL
          QG.YPHLLEQLLS.SDTPGDENADP.IVHFGSGESASEDAVMMNTPVVKSALEMGFSRSLVRQTVQSKIL
Retrocopy QG*YPHLLEQLLSSSDTPGDENADPLIVHFGSGESASEDAVMMNTPVVKSALEMGFSRSLVRQTVQSKIL

Parental  TTGENYKTVNDIVSALLNAEDEKREEEKERQAEEMASDDLSLIRKNRMALFQRLTCVLPILDNLLKANVI
          TTGENYKTVNDIVSALLNAEDEKREE.KERQAEEMASDDLSLI.K.R.ALFQRLT.V.PIL.NL.KANV.
Retrocopy TTGENYKTVNDIVSALLNAEDEKREEKKERQAEEMASDDLSLIQKHRIALFQRLTYVPPILNNL*KANVX

Parental  NKQE
          ...E
Retrocopy XXXE

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_2542 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 5 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000035735	1 retrocopy	retro_btau_1262,
Monodelphis domestica	ENSMODG00000000608	3 retrocopies	retro_mdom_1857, retro_mdom_585, retro_mdom_683,
Otolemur garnettii	ENSOGAG00000010377	2 retrocopies	retro_ogar_2542 , retro_ogar_953,
Otolemur garnettii	ENSOGAG00000025670	1 retrocopy	retro_ogar_2859,
Otolemur garnettii	ENSOGAG00000030385	1 retrocopy	retro_ogar_3331,