RetrogeneDB ID: retro_ogar_676

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873525.1:8844238..8845338(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PCYT1B
• Ensembl ID: ENSOGAG00000005599
• Aliases: None
• Description: phosphate cytidylyltransferase 1, choline, beta [Source:HGNC Symbol;Acc:8755]

Sequence

>retro_ogar_676
GTACTTACCACTGATGCTGAGTCAGAAACAGGTATCCCAAAATCCCTTTCCAATGAGCCTCCCTCAGAAACCATGGAGGA
GATAGAGCACACATGCCCACAGCCTCAACTGACCCTGACTACACCTGCCCCATTTTCAGATGAAACCAGTTGCCAATGCC
AAGCACCCCATGAAAAACTGACCATTGCTCAGGCCCACTTAGGGACACCAGTTGACAGGCCTGTCAGAGTATATGCAGAT
GGAATATTTGACCTCTTCCACTCAGGTCATGCAAGAGCACTTATGCAAGCAAAAACACTGTTTCCCAACAGCTACTTGTT
GGTTGGAGTTTGCAGCGATGATCTCACCCACAAATTCAAAGGTTTCACTGTGATGAATGAAGCAGAGAGGTATGAAGCTC
TCAGGCACTGTCACTATGTGGATGAAGTAATCAGAGATGCTCCTTGGACACTCACACCAGAGTTTCTGGAAGAACACAAG
ATTGACTTTGTGGCTCATGATGACATTCCGTATTCTTCTGCTGGCTCTGATGATGTTTACAAGCCTATAAAGGATGCAGG
GATGTTTATTCCAACCCAGAGAACAGAAGGCATCTCAACTTAGGACATCATCACCAGAATTGTCCGTGACTATGATGTTT
ATGCTCGACGCAACCTCCAGAGAGGGTATACAGCCAAGGAACTGAATGTCAGCTTTATAAATGAGAAGAAGTATCATTTC
CAGAACCAGGTAGACAAGATGAAGGAAAAAGTCAAAAATGTGGAGGAAAGATCAAAGGAGTTTGTGAATAGGGTGGAAGA
AAGAGTCATGATCTAATTCAAAAGTGGGAAGAGAAGTCAAGGGAATTCATTGGCAACTTTCTAGAAGTGTTTGGACCTGA
TGGAACATGGAAGCAGATGTTTCAGGAGAGGAGTAGCCGGATATTACAGGCCTTATCACCGAAGCAGAGCCCCGTGAACA
GCCCAACCAGGAGCCAGTCCCCTTCCCGCTCCCCATCACCCACTTTCTCATGGCTTCCGATCAAATCCTCACCCTCCTCC
TCACCCAAAGCAGCCTCAGCCTCCATCAGCAGCCTGAGCCAGGGGGATGAGGATGAGAAG

Alignment

ORF - retro_ogar_676 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.47 %
• Parental protein coverage: 99.46 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VLTTDAESETGIPKSLSNEPPSETMEEIEHTCPQPRLTLTTPAPFSDETSCQCQAPHEKLTIAQARLGTP
          VLTTDAESETGIPKSLSNEPPSETMEEIEHTCPQP.LTLTTPAPFSDETSCQCQAPHEKLTIAQA.LGTP
Retrocopy VLTTDAESETGIPKSLSNEPPSETMEEIEHTCPQPQLTLTTPAPFSDETSCQCQAPHEKLTIAQAHLGTP

Parental  VDRPVRVYADGIFDLFHSGHARALMQAKTLFPNSYLLVGVCSDDLTHKFKGFTVMNEAERYEALRHCRYV
          VDRPVRVYADGIFDLFHSGHARALMQAKTLFPNSYLLVGVCSDDLTHKFKGFTVMNEAERYEALRHC.YV
Retrocopy VDRPVRVYADGIFDLFHSGHARALMQAKTLFPNSYLLVGVCSDDLTHKFKGFTVMNEAERYEALRHCHYV

Parental  DEVIRDAPWTLTPEFLEKHKIDFVAHDDIPYSSAGSDDVYKPIKDAGMFIPTQRTEGISTSDIITRIVRD
          DEVIRDAPWTLTPEFLE.HKIDFVAHDDIPYSSAGSDDVYKPIKDAGMFIPTQRTEGIST.DIITRIVRD
Retrocopy DEVIRDAPWTLTPEFLEEHKIDFVAHDDIPYSSAGSDDVYKPIKDAGMFIPTQRTEGIST*DIITRIVRD

Parental  YDVYARRNLQRGYTAKELNVSFINEKKYRFQNQVDKMKEKVKNVEERSKEFVNRVEE-KSHDLIQKWEEK
          YDVYARRNLQRGYTAKELNVSFINEKKY.FQNQVDKMKEKVKNVEERSKEFVNRVEE.KSHDLIQKWEEK
Retrocopy YDVYARRNLQRGYTAKELNVSFINEKKYHFQNQVDKMKEKVKNVEERSKEFVNRVEE<KSHDLIQKWEEK

Parental  SREFIGNFLELFGPDGAWKQMFQERSSRMLQALSPKQSPVNSPTRSRSPSRSPSPTFSWLPIKSSPPSSP
          SREFIGNFLE.FGPDG.WKQMFQERSSR.LQALSPKQSPVNSPTRS.SPSRSPSPTFSWLPIKSSP.SSP
Retrocopy SREFIGNFLEVFGPDGTWKQMFQERSSRILQALSPKQSPVNSPTRSQSPSRSPSPTFSWLPIKSSPSSSP

Parental  KAASASISSLSEGDEDEK
          KAASASISSLS.GDEDEK
Retrocopy KAASASISSLSQGDEDEK

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_676 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000005599	1 retrocopy	retro_ogar_676 ,