RetrogeneDB ID: retro_ogar_1311

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873542.1:7120791..7122276(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000034349
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: CTNNBL1
• Ensembl ID: ENSOGAG00000011494
• Aliases: None
• Description: catenin, beta like 1 [Source:HGNC Symbol;Acc:15879]

Sequence

>retro_ogar_1311
GACCGTGACGGAGAGGAGGAGGCACTGGATGAAAGCTCGGTGAAGAAAATGATCCTCACGTTTGAAAAGAGATCGTACAA
AAACCAAGAATTGCGGATTAAGTTTCCAGACAAGCCGGAGAAGTTCCTGGAATCTGAGCTGGACCTAAATGACATCCTTC
ACGAAATGCACGTGGTGGCCACCAGGCCAGACCTGTACCACCTTCTGGTGGAGCTGAATGCCATGCAGTCACTTCTCGGG
TTGCTTAGACATGATAATACAGATGTGTCCATAGCAGTGGTTGATCTGCTTCAAGAACTGACAGATATAGACACCCTCCA
TGAGAGTGAGGAGGGAGCGGAAGTCCTCATCGATGCTCTGGTGGACCGGCCTGTAGTAGCACTGCTGGTACAGAATCTGG
AGCGCCTGGACGAATCTGTGAAAGAGGAGGCAGACGGTGTCCATAACACTCTGGCTCTTATAGAAAACATGGCAGAGTTC
CGACCCGAGATGTGTACAGACGGTGCCCAGCAGGGCCTTCTGCAGTGGCTGTTGAAGAGGCTGAAGGCAAAGATGCCTTT
CGATGCCAACAAACTGTATTGCAGTGAAGTGCTGGCCATATTGCTCCAGGACAACGATGATAACAGGGAATTGCTTGGGC
AGCTGGATGGCATCGATGTGCTTCTTCAGCAGTTATCCGTGTTTAAAAGACACGATCCCCGCACAGCTGAAGAGCAGGAG
ATGATGGAGAATCTGTTCGATGCACTCTGCTCCTGCCTAATGCTCAGTTCCAATCGCGAGCGCTTCCTGAAGGGTGAGGG
TCTCCAGCTGATGAATCTCATGCTCAGGGAAAAGAAGATCTCCCGGAGCAGTGCCCTGAAAGTGCTGGACCATGCTATGA
TGGGGCCCGAGGGCACCGACAACTGTCATAAATTTGTTGACATTCTTGGCTTACGAACCATCTTTCCCCTCTTTATGAAA
TCTCCCAGGAAGATCAAGAAAGTGGGAACCACTGAGAAGGAACACGAAGAGCATGTCTGTTCCATCCTGGCTTCCCTCCT
GCGGAACCTGAGAGGGCAGCAGCGAACCCGGCTTCTGAACAAATTCACTGAAAATGACAGTGAAAAGGTTGATAGACTAA
TGGAGTTGCATTTTAAATATATGAGTGCAATGCAGCTATCAGACAAGAAGACTGAAGGGGAAAAACACGACCTGGTCCGG
CATGGGGAGATCATAGACAATGACACTGAGGATGAGTTCTACCTCCGGCGCCTGGACGCAGGGCTCTTTGTTCTCCAGCA
AATCTGCTACATCATGGCTGAGATCTGCAATGCCAACGTCCCCCAGATTCGCCAGAGGGTCCACCAGATCCTGAACATGC
GAGGAAGCTCCATCAAAATTGTCAGGCACATCATCAAGGAGTATGCAGAGAACATCGGGGACGGCCGGAGCCCAGAGTTC
CGGGAGAACGAGCAGAAGCACATCCTGGGCCTGCTGGAGAACTTC

Alignment

ORF - retro_ogar_1311 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.55 %
• Parental protein coverage: 87.92 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EEEEEEEPLDESSVKKMILTFEKRSYKNQELRIKFPDNPEKFMESELDLNDIIQEMHVVATMPDLYHLLV
          ....EEE.LDESSVKKMILTFEKRSYKNQELRIKFPD.PEKF.ESELDLNDI..EMHVVAT.PDLYHLLV
Retrocopy DRDGEEEALDESSVKKMILTFEKRSYKNQELRIKFPDKPEKFLESELDLNDILHEMHVVATRPDLYHLLV

Parental  ELNAVQSLLGLLGHDNTDVSIAVVDLLQELTDIDTLHESEEGAEVLIDALVDGQVVALLVQNLERLDESV
          ELNA.QSLLGLL.HDNTDVSIAVVDLLQELTDIDTLHESEEGAEVLIDALVD..VVALLVQNLERLDESV
Retrocopy ELNAMQSLLGLLRHDNTDVSIAVVDLLQELTDIDTLHESEEGAEVLIDALVDRPVVALLVQNLERLDESV

Parental  KEEADGVHNTLAIIENMAEFRPEMCTDGAQQGLLQWLLKRLKAKMPFDANKLYCSEVLAILLQDNDDNRE
          KEEADGVHNTLA.IENMAEFRPEMCTDGAQQGLLQWLLKRLKAKMPFDANKLYCSEVLAILLQDNDDNRE
Retrocopy KEEADGVHNTLALIENMAEFRPEMCTDGAQQGLLQWLLKRLKAKMPFDANKLYCSEVLAILLQDNDDNRE

Parental  LLGELDGIDVLLQQLSVFKRHNPGTAEEQEMMENLFDSLCSCLMLSSNRERFLKGEGLQLMNLMLREKKI
          LLG.LDGIDVLLQQLSVFKRH.P.TAEEQEMMENLFD.LCSCLMLSSNRERFLKGEGLQLMNLMLREKKI
Retrocopy LLGQLDGIDVLLQQLSVFKRHDPRTAEEQEMMENLFDALCSCLMLSSNRERFLKGEGLQLMNLMLREKKI

Parental  SRSSALKVLDHAMIGPEGTDNCHKFVDILGLRTIFPLFMKSPRKIKKVGTTEKEHEEHVCSILASLLRNL
          SRSSALKVLDHAM.GPEGTDNCHKFVDILGLRTIFPLFMKSPRKIKKVGTTEKEHEEHVCSILASLLRNL
Retrocopy SRSSALKVLDHAMMGPEGTDNCHKFVDILGLRTIFPLFMKSPRKIKKVGTTEKEHEEHVCSILASLLRNL

Parental  RGQQRTRLLNKFTENDSEKVDRLMELHFKYMNAMQLSDKKIEGEKHDMVRRGEIIDNDIEDEFYLRRLDA
          RGQQRTRLLNKFTENDSEKVDRLMELHFKYM.AMQLSDKK.EGEKHD.VR.GEIIDND.EDEFYLRRLDA
Retrocopy RGQQRTRLLNKFTENDSEKVDRLMELHFKYMSAMQLSDKKTEGEKHDLVRHGEIIDNDTEDEFYLRRLDA

Parental  GLFVLQHICYIMAEICNANVPQIRQRVHQILNMRGSSIKIVRHIIKEYAENIGDGRSPEFRENEQKRILG
          GLFVLQ.ICYIMAEICNANVPQIRQRVHQILNMRGSSIKIVRHIIKEYAENIGDGRSPEFRENEQK.ILG
Retrocopy GLFVLQQICYIMAEICNANVPQIRQRVHQILNMRGSSIKIVRHIIKEYAENIGDGRSPEFRENEQKHILG

Parental  LLENF
          LLENF
Retrocopy LLENF

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_1311 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000013001	1 retrocopy	retro_meug_910,
Myotis lucifugus	ENSMLUG00000015803	1 retrocopy	retro_mluc_177,
Otolemur garnettii	ENSOGAG00000011494	1 retrocopy	retro_ogar_1311 ,