RetrogeneDB ID: retro_ogar_1855

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873570.1:5168134..5169583(+)
• Located in intron of: ENSOGAG00000002469

Retrocopy information

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

Parental gene information

• Parental gene symbol: PIP5K1A
• Ensembl ID: ENSOGAG00000002846
• Aliases: None
• Description: phosphatidylinositol-4-phosphate 5-kinase, type I, alpha [Source:HGNC Symbol;Acc:8994]

Sequence

>retro_ogar_1855
ACAACTTCATCAACCTTGAAAGGTGCCATCCAGTTGGGTATTACGCACACTGTGGGGAGCCTGAGTACTAAACCTGAGCG
GGATGTCCTCATGCAAGATTTCTACGTAGTGGAGAGTATCTTCTTTCCCAGTGAAGGGAGCAACCTAACTCCTGCTCATC
ACTACAGTGACTTTCGTTTCAAGACCTATGCACCTGTTGCCTTCCGCTACTTTCGGGAGCTATTTGGCATCCGGCCTGAT
GATTACTTGTACTCCCTCTGCAATGAACCACTGATTGAACTGCGCAACCCTGGAGCTAGTGGTTCCCTCTTCTATGTATC
CAGCGATGACGGATTCATCATTAAAACAGTCCAACATAAAGAGGCGGAGTTTCTGCAGAAGCTGCTTCCGGGATACTACA
TGAACCTTAACCAGAACCCTCGGACTTTGTTGCCCAAATTCTATGGACTGTACTGTGTTCAAGCAGGTGGCAAGAACATT
CGAATTGTGGCAATGAATAATCTCTTACCACATTCAGTCAAAATGCATATGAAGTATGACCTTAAGGGTTCAACCTACAA
ACGACGGGCTTCTCAAAAAGAACGAGAGAAGCCTCTCCCCACCTTTAAAGACCTGGACTTCTTACAAGACATCCCTGATG
GTCTTTTTTTGGATGCTGACATGTACAATGCCCTTTGTAAGACCCTGCAGCGTGACTGTCTGGTGCTGCAGAGCTTTAAG
ATAATGGACTATAGCCTCTTGGTATCAATCCACAACATTGATCATGCACAACAAGAGGCATTGTACAGTGAAACACAATA
CTTGGTTGACAGTCGCCGACCAACTGCCCAAAAGGCTCTCTATTCTACAGCCATGGAATCCATCCAGGGCGAGGCTCGAA
GAGGTGGCACCATGGAGACTGATGACCATATGGGTGGCATTCCTGCCCGGAATAGTAAAGGGGAAAGGCTCCTGCTTTAT
ATCGGCATCATTGACATTCTGCAGTCTTACAGGTTTATTAAGAAGTTGGAGCACTCTTGGAAAGCCTTAGTACATGATGG
TGACACTGTATCGGTGCATCGCCCAAGCTTCTATGCCGAACGGTTCCGGCACTTCATGTGCAACATAGTGTTTAAGAAAA
TTCCCTTGAAACCCTCTTCTTCCAAAAAGTTTAGGTCTGGCTCATCTTTCTCTCTGCGAGCAGGACCAAGCAGCAACTCC
TCCATTAATTATTAGCCATCAGTCTCTGGGGAACACAAGGCACAAATGACAACAAAGGCAGAAGTCGAGCCAGGCATTCA
CATTGGTCGTCCTGATGTTTTACCTCAGACTCCACCTTTGGAGGAAATCAGCGAGGGGTCGCCTATTCTTGACCCCAGTT
TCTCACCTGTAGTTGAAGAGAATTTGTAAATGCTAACTACAAGTACAACCTTGGAAAAGCTTGAGGTTGCAAAGTCAGAA
TTCACCCAT

Alignment

ORF - retro_ogar_1855 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.17 %
• Parental protein coverage: 85.79 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  TTSSALKGAIQLGITHTVGSLSTKPERDVLMQDFYVVESIFFPSEGSNLTPAHHYNDFRFKTYAPVAFRY
          TTSS.LKGAIQLGITHTVGSLSTKPERDVLMQDFYVVESIFFPSEGSNLTPAHHY.DFRFKTYAPVAFRY
Retrocopy TTSSTLKGAIQLGITHTVGSLSTKPERDVLMQDFYVVESIFFPSEGSNLTPAHHYSDFRFKTYAPVAFRY

Parental  FRELFGIRPDDYLYSLCNEPLIELCNSGASGSLFYVSSDDEFIIKTVQHKEAEFLQKLLPGYYMNLNQNP
          FRELFGIRPDDYLYSLCNEPLIEL.N.GASGSLFYVSSDD.FIIKTVQHKEAEFLQKLLPGYYMNLNQNP
Retrocopy FRELFGIRPDDYLYSLCNEPLIELRNPGASGSLFYVSSDDGFIIKTVQHKEAEFLQKLLPGYYMNLNQNP

Parental  RTLLPKFYGLYCVQAGGKNIRIVVMNNLLPRSIKMHIKYDLKGSTYKRRASQKEREKPLPTFKDLDFLQD
          RTLLPKFYGLYCVQAGGKNIRIV.MNNLLP.S.KMH.KYDLKGSTYKRRASQKEREKPLPTFKDLDFLQD
Retrocopy RTLLPKFYGLYCVQAGGKNIRIVAMNNLLPHSVKMHMKYDLKGSTYKRRASQKEREKPLPTFKDLDFLQD

Parental  IPDGLFLDADMYNALCKTLQRDCLVLQSFKIMDYSLLMSIHNIDHAQREALNSETQYLVDTRRPAPQKAL
          IPDGLFLDADMYNALCKTLQRDCLVLQSFKIMDYSLL.SIHNIDHAQ.EAL.SETQYLVD.RRP..QKAL
Retrocopy IPDGLFLDADMYNALCKTLQRDCLVLQSFKIMDYSLLVSIHNIDHAQQEALYSETQYLVDSRRPTAQKAL

Parental  YSTAMESIQGEARRGGTMETDDHMGGIPARNSKGERLLLYIGIIDILQSYRFVKKLEHSWKALVHDGDTV
          YSTAMESIQGEARRGGTMETDDHMGGIPARNSKGERLLLYIGIIDILQSYRF.KKLEHSWKALVHDGDTV
Retrocopy YSTAMESIQGEARRGGTMETDDHMGGIPARNSKGERLLLYIGIIDILQSYRFIKKLEHSWKALVHDGDTV

Parental  SVHRPGFYAERFQRFMCNTAFKKIPLKPSPSKKFRSGSSFSRRAGPSSNFSVSYQPSVSGEHKAQVTTKA
          SVHRP.FYAERF..FMCN..FKKIPLKPS.SKKFRSGSSFS.RAGPSSN.S..Y.PSVSGEHKAQ.TTKA
Retrocopy SVHRPSFYAERFRHFMCNIVFKKIPLKPSSSKKFRSGSSFSLRAGPSSNSSINY*PSVSGEHKAQMTTKA

Parental  EVEPGIHIGRPDVLPQTPPLEEISDGSPIPDPSFSPVVEENLQMLTTSTTLEKLEVAESGFTH
          EVEPGIHIGRPDVLPQTPPLEEIS.GSPI.DPSFSPVVEENL.MLTTSTTLEKLEVA.S.FTH
Retrocopy EVEPGIHIGRPDVLPQTPPLEEISEGSPILDPSFSPVVEENL*MLTTSTTLEKLEVAKSEFTH

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_1855 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 7 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000143398	2 retrocopies	retro_hsap_3420, retro_hsap_716,
Gorilla gorilla	ENSGGOG00000026610	2 retrocopies	retro_ggor_2566, retro_ggor_606,
Macaca mulatta	ENSMMUG00000005228	1 retrocopy	retro_mmul_1748,
Nomascus leucogenys	ENSNLEG00000010130	2 retrocopies	retro_nleu_468, retro_nleu_5,
Otolemur garnettii	ENSOGAG00000002846	1 retrocopy	retro_ogar_1855 ,
Pongo abelii	ENSPPYG00000000872	4 retrocopies	retro_pabe_3037, retro_pabe_3112, retro_pabe_59, retro_pabe_619,
Pan troglodytes	ENSPTRG00000001282	2 retrocopies	retro_ptro_2324, retro_ptro_511,