RetrogeneDB ID: retro_pvam_1243

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: scaffold_4739:91206..91790(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SERPINB6
• Ensembl ID: ENSPVAG00000010001
• Aliases: None
• Description: serpin peptidase inhibitor, clade B (ovalbumin), member 6 [Source:HGNC Symbol;Acc:8950]

Sequence

>retro_pvam_1243
GAAAGGACTGCTCTGATTCTCGTGAATGCCATCTACTTCGAAGAAAATTGGAATAAACAGTTTAAGAAGTAGCAGACCAA
GGAAAGACTATTTAAATTCAGCAAGAACGAGAAGAAACCTGCGCAAGTAATGTTTAAGAAAGCTACCTTTAATGTGATCT
ATAAAGGAGAAATAGTCACCCAAACTTTAGCTTTGCCTCTTGTCAAAGAGCTGAATATGATCATCATGCTTCCAGATGAA
AACGTGGACTTGGGAATGCTGGAAAAAAAACTTACTTATGAGAAATTCATAGAATAGATGAGGCCAGAAATAATGGATAA
ACAAGAGGTAGAAGTGTTCCTCCCTAGATTTAAACTGGAGGAGAATTATAACATGAAGGATGTCCTTCACTCTCTCAGCA
TGATGGGTGCCTTTAGTCTGGGCAGGGCAGACTTATCTGGAATGTCATAAGGGAGAGACCTGTTTCTGTCCAAGGTTTTG
CACAAGTCCTTTGTGGAGGTCAATGAGGAAGGCTTGGAGGCTGCGGGGGCCACTGCACCACCGTGATGTTTTGATGTGTA
TCATTCCTCTCCAAGTTCTATGCC

Alignment

ORF - retro_pvam_1243 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.05 %
• Parental protein coverage: 51.17 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ERTPLILVNAIYFKGNWHQEFNKEQTKERPFKVSKNEKKPVQMMFKKSTFNMTYIGEIFTKILVLPYVGK
          ERT.LILVNAIYF..NW...F.K.QTKER.FK.SKNEKKP.Q.MFKK.TFN..Y.GEI.T..L.LP.V.K
Retrocopy ERTALILVNAIYFEENWNKQFKK*QTKERLFKFSKNEKKPAQVMFKKATFNVIYKGEIVTQTLALPLV-K

Parental  ELNMIIMLPDDNVDLETVEKELTYEKFIEWTRPDMLDKQEVEVFLPRFKLEENYDMKDVLRFLGMTDAFD
          ELNMIIMLPD.NVDL......LTYEKFIE..RP...DKQEVEVFLPRFKLEENY.MKDVL..L.M..AF.
Retrocopy ELNMIIMLPDENVDLGMLXXXLTYEKFIE*MRPEIMDKQEVEVFLPRFKLEENYNMKDVLHSLSMMGAFS

Parental  LGRADFSGMSSGKDLFLSEVVHKSFVEVNEEGTEAAAATA-AIMMCRCASFAPRFCA
          LGRAD.SGMS.G.DLFLS.V.HKSFVEVNEEG.EAA.ATA....M..C.SF...F.A
Retrocopy LGRADLSGMS*GRDLFLSKVLHKSFVEVNEEGLEAAGATA<TTVMF*CVSFLSKFYA

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_1243 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 8 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000017483	1 retrocopy	retro_btau_827,
Microcebus murinus	ENSMICG00000001981	1 retrocopy	retro_mmur_403,
Myotis lucifugus	ENSMLUG00000008803	1 retrocopy	retro_mluc_1610,
Monodelphis domestica	ENSMODG00000005468	2 retrocopies	retro_mdom_510, retro_mdom_602,
Mustela putorius furo	ENSMPUG00000000448	1 retrocopy	retro_mputfur_1037,
Mus musculus	ENSMUSG00000060147	2 retrocopies	retro_mmus_3191, retro_mmus_3192,
Pteropus vampyrus	ENSPVAG00000010001	1 retrocopy	retro_pvam_1243 ,
Tursiops truncatus	ENSTTRG00000003879	2 retrocopies	retro_ttru_1224, retro_ttru_1837,