RetrogeneDB ID: retro_pvam_313

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: GeneScaffold_2482:213610..214657(+)
• Located in intron of: ENSPVAG00000000855

Retrocopy information

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

Parental gene information

• Parental gene symbol: KIF22
• Ensembl ID: ENSPVAG00000017206
• Aliases: None
• Description: kinesin family member 22 [Source:HGNC Symbol;Acc:6391]

Sequence

>retro_pvam_313
GTGGATGCGCAGAACGAGGGCCTGCCTCACCTGTCACAGGACTCTCCGCGTGGCTCAGTCCACAGCATCCTCATTGCCAA
CACTGCCCCCTAGAGATGCTTCTACCTAGACACAGTCCCTGCACTCGACTTTGCTGCCAGGTGCAAGGAGGTGATCAATC
GACCTTCTACCAGTGAGAGCCTACAGCTTCATGTCTTGGCACCTGTTAAACTGTCTCAGAAAGGACAGCTAGGTCCTTCA
GAGGCAAAGAAAACTCGAGGCCCTGAGGAAGAGGAGATTGGGAATCCTGAGCCCCCCGCACTTCTAGCTTCTGCCTCCCA
GAAATTCAGCCCCCTACAGAAGCTAAGTAGCATGGACCCGGCCATGCTGGAGCGCCTCCTGAGCTTGGACCATTTGCTGG
GCTCCCGGGGAACCTGGGGGACCCCTCTGCTGAGCACCCCAAGACAAGAGTGGATGGTGCTCACGAAGACAGTGGAGGAA
AAGGATTGGAAGACTGAAAGGCTTAAGATAAAGCAAAAAGAACTGGAAGCCAAGGTGCTGGCCCGGGAAGCTGTGGACCC
GAAGGAGAACTGCTCTCCCACGATGCTCCGACCCTTCGCCCGCCGCATAGTCATGGTCGCTAAGCCCCTCGAGAAGGCTG
TGGAGATGCCCCTACAACTAATACAGGAGCAGGCAGCATCCCCAAATGCCGACATCCACACCCTGAAGAAAAGCTGCAAG
AGAAAGCTGGAGTGCCCGGATGGCTCGGAGCCGTTGGAGAAGGCTGAGGACTGTTGTGAGCTACGGATCAGCCCAGAGCT
ACCGGTCTGTGGGTGTCAGAAAATATTCGATCTGCTTCACGAAAGCTCAGCCTGGTATCTGCGCAGCCTGCAGCGCATTG
GCCAAAACAAGGCCCAGCTCATTGTGGGCTGGAGGAAGCTCCACGGCCCCTCCAGCCCGGTGGAAGACCTGGAACGTGTG
AAAGTCACGCCAGGGAAACAGCTGGTGTGATTCCTGAAGGCGAACATCCCGGGTCTCGCCGCTGTGGGTCAGTGCTGTGG
CCCTTCC

Alignment

ORF - retro_pvam_313 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.2 %
• Parental protein coverage: 52.94 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VPYRDSKLTRLLQDSLGGSAHSILIANIAPERCFYLDTVSALNFAARSKEVINRPFTNESLQLHVLAPVK
          V......L..L.QDS..GS.HSILIAN.AP.RCFYLDTV.AL.FAAR.KEVINRP.T.ESLQLHVLAPVK
Retrocopy VDAQNEGLPHLSQDSPRGSVHSILIANTAP*RCFYLDTVPALDFAARCKEVINRPSTSESLQLHVLAPVK

Parental  LSQKEQLGPSEAKKTRGPEEEEIGNPEPPALLASASQKFSPLQKLSNMDPAMLKHLLSLDRLLGSQGTQG
          LSQK.QLGPSEAKKTRGPEEEEIGNPEPPALLASASQKFSPLQKLS.MDPAML..LLSLD.LLGS.GT.G
Retrocopy LSQKGQLGPSEAKKTRGPEEEEIGNPEPPALLASASQKFSPLQKLSSMDPAMLERLLSLDHLLGSRGTWG

Parental  TPLLSTPRRERMVLMKTVEEKDLEIERLKMKQKELEAKVLAQEAVDPKEKEKRSPTMHQPLACRTVTVAK
          TPLLSTPR.E.MVL.KTVEEKD...ERLK.KQKELEAKVLA.EAVDP..KE..SPTM..P.A.R.V.VAK
Retrocopy TPLLSTPRQEWMVLTKTVEEKDWKTERLKIKQKELEAKVLAREAVDP--KENCSPTMLRPFARRIVMVAK

Parental  PLKKAVVIPLQLIQEQAASPNVDIHILKKSRKRKLECLNGSEPLEKAEDCWELQISPELLVNGRQKILNL
          PL.KAV..PLQLIQEQAASPN.DIH.LKKS.KRKLEC..GSEPLEKAEDC.EL.ISPEL.V.G.QKI..L
Retrocopy PLEKAVEMPLQLIQEQAASPNADIHTLKKSCKRKLECPDGSEPLEKAEDCCELRISPELPVCGCQKIFDL

Parental  LNEGSARDLRSLQRIGQKKAQLIVGWRKLHGPFSQVEDLERVKVMSGKQLESFLKANILGLAAAGQHCGP
          L.E.SA..LRSLQRIGQ.KAQLIVGWRKLHGP.S.VEDLERVKV..GKQL..FLKANI.GLAA.GQ.CGP
Retrocopy LHESSAWYLRSLQRIGQNKAQLIVGWRKLHGPSSPVEDLERVKVTPGKQLV*FLKANIPGLAAVGQCCGP

Parental  S
          S
Retrocopy S

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_313 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 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000007193	1 retrocopy	retro_cjac_144,
Mus musculus	ENSMUSG00000030677	1 retrocopy	retro_mmus_471,
Otolemur garnettii	ENSOGAG00000000266	1 retrocopy	retro_ogar_2234,
Pteropus vampyrus	ENSPVAG00000009856	1 retrocopy	retro_pvam_3,
Pteropus vampyrus	ENSPVAG00000017206	1 retrocopy	retro_pvam_313 ,