RetrogeneDB ID: retro_pvam_793

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: scaffold_11572:22224..22605(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: UCK2
• Ensembl ID: ENSPVAG00000007694
• Aliases: None
• Description: uridine-cytidine kinase 2 [Source:HGNC Symbol;Acc:12562]

Sequence

>retro_pvam_793
GACGTGGTCCTGTTTGAGGGCATCTCGGTGTTCTATAGCCAGGAGATCGGGGACATGTTCTACCTGCGCCTCTTTGTGGA
CACCAACTCCGATGTCACGCTGTCGAAAAGAGTTCTCCAGGACATGAACTGTGGAAAGGACCTAGAACAGATCCTGACCC
AATACACCACCTTCGTGAAGCTAGCCTTCGAGGAGTTCTGCCTGCCGACGAAGAAATATGTCAACGTGATAATCCCTTGT
GGGAATGACAATATGGTTGCCACCAATCTGATTGTGCAACACATCTAGGACATTCTGGATGGTGACATCTGCAAGTGGCA
CCATGGAGGGTCCAATGGGTGGAGCTACAAGAGAACGTTTCTAGAGCCAGGAGACCATCCT

Alignment

ORF - retro_pvam_793 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.67 %
• Parental protein coverage: 52.61 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DVVLFEGILAFYSQEVRDLFHMKLFVDTDADTRLSRRVLRDISERGRDLEQILSQYITFVKPAFEEFCLP
          DVVLFEGI..FYSQE..D.F...LFVDT..D..LS.RVL.D....G.DLEQIL.QY.TFVK.AFEEFCLP
Retrocopy DVVLFEGISVFYSQEIGDMFYLRLFVDTNSDVTLSKRVLQDMN-CGKDLEQILTQYTTFVKLAFEEFCLP

Parental  XXXXXXXXXXXXXXXXXAINLIVQHIQDILNGGLSKRQTNGYLNGYTPARKRRASESGSRP
          .................A.NLIVQHI.DIL.G...K....G..NG.....KR...E.G..P
Retrocopy TKKYVNVIIPCGNDNMVATNLIVQHI*DILDGDICKWH-HGGSNGW--SYKRTFLEPGDHP

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Pteropus vampyrus was not studied using RNA-Seq expression data.

ChIP-Seq

Pteropus vampyrus was not studied using ChIP-Seq data.

EST

Pteropus vampyrus was not studied using EST data.

TSS

Pteropus vampyrus was not studied using FANTOM5 data.

Lab

retro_pvam_793 was not experimentally validated.

Homology

Retrocopy orthology:

Pteropus vampyrus 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Erinaceus europaeus	ENSEEUG00000013484	1 retrocopy	retro_eeur_199,
Myotis lucifugus	ENSMLUG00000016012	1 retrocopy	retro_mluc_589,
Oryctolagus cuniculus	ENSOCUG00000008446	1 retrocopy	retro_ocun_1924,
Pteropus vampyrus	ENSPVAG00000007694	1 retrocopy	retro_pvam_793 ,