RetrogeneDB ID: retro_pvam_1473

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: scaffold_94846:146..845(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: KLK13
• Ensembl ID: ENSPVAG00000010413
• Aliases: None
• Description: kallikrein-related peptidase 13 [Source:HGNC Symbol;Acc:6361]

Sequence

>retro_pvam_1473
TGGTCCCTGGATGTAGTGATTGCCTTCCTGAATGTGGCTTCATCAGATGGTATCTCTCAGGAGTATCCCAAGATTCTCAG
TGGAACCAGTGGGCTTCTCCTGGGTGGCTACACCTGCTTCCCCCACTCTCAGCCCTGGTAGACAGCCCTACTAGTATAGG
GATGGCTGCTCTGTAAGGGAGTCCTGATCTACCCCAGATGGATCCTCACTGCAGCACACTATATGAAGGATAGGTGCAGA
GTTTACCTTGGCAAGCATGCCCTGGGTCATGTGGAGGCTGGAGAGCAGGTGAGGGAGGTAGTCTGTTTTATCACCCATCT
TTAGTACCAGAGCAGTCTCACTCACCTAAGCCATAACCACAATATCATACTTCTGGAGTGATGGTCCCTGGTCCAGCTCA
TGAGCCGCATCCATGTCCTACCCCTCTCCTACAGTGACTGCCTCCCCGCTTCCACCTGCTGTCAGGTGTCTGGCTCGGGT
ACCACCACCAGTCCCCAGGTGAGTTACTCCCAAACCTTACAATGTGCCAACATCCAGCTATGCTCTGATGAGTGTCATCA
TGTCTACCTGAGGAAGATCACAGCAAACCCACTGTGTGCTGGCACAAAAGAAGGTGGCAAGGACTCCTGTGGGGCCGACT
TTGATGGCCCACCCACTGTGATGGAATGCTTTGTGGCATCTTCTCTCTGTAGAGACTTC

Alignment

ORF - retro_pvam_1473 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.81 %
• Parental protein coverage: 87.36 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  WPLASAMAFLTVALSGGMSQEYPKILNGTNGTNGFLPGGYTCPPHSQPWQAALLVQGRLLCGGVLVHPRW
          W.L....AFL.VA.S.G.SQEYPKIL....GT.G.L.GGYTC.PHSQPW..ALLV.G.LLC.GVL..PRW
Retrocopy WSLDVVIAFLNVASSDGISQEYPKILS---GTSGLLLGGYTCFPHSQPW*TALLV*GWLLCKGVLIYPRW

Parental  VLTAAHCLKTGFRVYLGKHALGRVEAGEQVRDVVRHIRHPQYQSSPTHLHHDHDIMLLELRSPVQSTSYI
          .LTAAH..K...RVYLGKHALG.VEAGEQVR.VV..I.H..YQSS.THL.H.H.I.LLE..S.VQ..S.I
Retrocopy ILTAAHYMKDRCRVYLGKHALGHVEAGEQVREVVCFITHL*YQSSLTHLSHNHNIILLE*WSLVQLMSRI

Parental  RVLPLSYRDCLPPGTGCRVSGWGTTTSPQVSYPKTLQCADIQLRSDEECRQKYPGKITPNMLCAGTKEGG
          .VLPLSY.DCLP..T.C.VSG.GTTTSPQVSY..TLQCA.IQL.SD.EC...Y..KIT.N.LCAGTKEGG
Retrocopy HVLPLSYSDCLPASTCCQVSGSGTTTSPQVSYSQTLQCANIQLCSD-ECHHVYLRKITANPLCAGTKEGG

Parental  QDSC-EDFDGPPCDGMLCGIFS--CRDF
          .DSC..DFDGPP...M.C...S..CRDF
Retrocopy KDSCGADFDGPP-TVMECFVASSLCRDF

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_1473 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Erinaceus europaeus	ENSEEUG00000008293	1 retrocopy	retro_eeur_141,
Pteropus vampyrus	ENSPVAG00000010413	1 retrocopy	retro_pvam_1473 ,