RetrogeneDB ID: retro_pvam_8

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: scaffold_13754:24192..27510(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSPVAG00000015540
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: IPO5
• Ensembl ID: ENSPVAG00000004516
• Aliases: None
• Description: importin 5 [Source:HGNC Symbol;Acc:6402]

Sequence

>retro_pvam_8
ATGGCAGCGGCCGGGTCTGCAGGCGTACCGGCTACGGTGTCGGGAAAGCAAGAGTTTTACCAGCTTCTGAAGAACCTGAT
CAATCCAAGCTGTATGATGCGGAGGCAAGCAGAGGAAATCTATGAAAATATCCCAGGTCTGTGTAAGACTACATTCCTCT
TAGATGCCGTCAGAAATAGAAGAGCAGGTTATGAGGTGAGACAAATGGCTGCCGCATTGCTACGACGGCTTTTGTCCTCT
GGGTTTGAGGAAGTCTATCCAAATCTGCCTTCTGATGTTCAGAGGGACGTCAAGATTGAACTGATACTGGCTGTTAAGTT
AGAAACACATGCTAGTATGAGGAAAAAACTTTGTGATATTTTTGCCGTGCTGGCCAGGAATTTGATAGATGAGGATGGCA
CTAACCACTGGCCTGAAGGTCTGAAGTTCCTTATTGATTCAATCTACTCTAAAAATGTGGTTCTGTGGGAAGTTGCGCTT
CATGTTTTCTGGCACTTTCCTGGGATTTTTGGGAACCAAGAACGGCACGATTTGGATATCATCAAACGGTTGTTGGACCA
GTGTATTCAAGATCAAGAACACCCAGCAATCAGGACCTTATCCGCTAGAGCTGCAGCTGCATTTGTACTTGCCAATGAGA
ATAATATTGCTCTTTTCAAAGACTTTGCAGACTTGCTTCCTGGAATCTTACAGGCTGTGAATGACTCATGCTACCAGGAT
GATGATTCAGTGCTAGAGTCCCTTGTTGAGATTGCAGATACTGTACCTAAATACTTGGGTCCTTATTTAGAAGATACTCT
GCAGTTGAGTCTAAAGTTATGTGGAGACTCTAGACTTAGTAATCTGCAACGCCAGTTGGCCCTTGAAGTGATAGTGACCT
TGTCTGAAACTGCAACCCCAATGTTGAAAAAACATACAAATATTATTGCACAAGCAGTTCCTCATATATTAGCAATGATG
GTTGATCTACAAGATGATGAGGACTGGGTAAATGCTGATGAAATGGAGGAAGATGATTTTGACAGCAATGCAGTTGCTGC
TGAGAGTGCATTAGACAGACTGGCTTGTGGGCTTGGTGGAAAACTTGTTTTACCAATCACTAAGGAGCATATCATGCAGA
TGCTTCAGAGCCCTGACTGGAAATATCGACATGCTGGATTAATGGCCTTATCTGCCATTGGAGAAGGATGCCATCAGCAA
ATGGAACCAATTCTAGATGAAACAGTTAACTCTGTTTTGCTTTTTCTTCAGGATCCTCATCCAAGGGTGAGGGGTGCAGC
CTGTACTACACTTGGACAAATGGCTACAGATTTTGCACCTAACTTCCAAAAGAAATTCCATGAAACGGTGATTGCAGCTC
TGTTGCGTACCATGGAAAATCAAGGTAATCAGCGTGTGCAATCACATGCAGCTTCTGCACTAGTTATTTTTATTGAAGAC
TGCCCCAAATCATTGCTAGTTCTATATTTGGATAGTATGGTGAGAAATCTACATTCCATCTTGGTGATCAAACTTCAAGA
GTTGATTCGGAATGGAACTAAGTTGGCCTTGGAACAGCTTGTGACAACCATTGCCTCAGTTGCAGATACAATAGAAGAAA
AATTTGTTCCATATTATGATATATTTATGCCCTCACTAAAGCACATTGTTGAGCTTGCCGTTCAAAAGGAACTCAAGCTT
CTGAAAGGAAAAACTATTGAGTGCATTAGCCATGTTGGTCTTGCTGTTGGGAAGGAAAAATTTATGCAAGATGCATCAAA
TGTGATGCAGCTATTGTTGAAGACACAATCAGACTTAAATAATATGGAAGATGATGACCCTCAGACTTCTTACATGGTTT
CAGCTTGGGCTAGAATGTGTAAAATTCTTGGAAATGATTTTCAACAGTACCTTCCACTGGTTATCGAGCCTCTTATTAAG
ACTGCTTCTGCTAAACCTGATGTTGCTCTCTTAGACACACAAGATGTGGAGAATATGAGTGATGATGATGGCTGGCAATT
TGTAAACCTTGGAGACCAGCAAAGTTTTGGAATTAAAACTTCAGGACTTGAAGCAAAAGCAACAGCTTGCCAGATGTTGG
TATATTATGCTAAGGAATTAAGAGAAGGATTTGTGGAATATACAGAACAAGTTGTGAAGCTGATGGTTCCTTTACTGAAA
TTTTATTTCCATGACAATGTTCGAGTGGCAGCAGCTGAGTCCATGCCCTTTCTCCTGGAATGTGCAAGAATTCGTGGCCC
AGAGTATCTTGCACAGATGTGGCAGTTCATATGTGATCCCTTAATCAAGGCTATTGGGACTGAACCTGATACAGATGTAC
TCTCAGAAATAATGAATTCTTTTGCAAAGTCCATTGAAGTAATGGGAGATGGATGCCTTAATGATGAGCACTTGGAAGAA
CTAGGAGAAATATTGAAAGCAAAACTTGAAGGGCACTTCAAAAATCAAGAATTGAGACAAGTTAAAAGACAGGAAGAAAA
CTATGACCAACAGGTTGAAATGTCTCTGCAAGATGAGGATGAATGTGATGTTTACATTTTGACCAAAGTATCAGATATTT
TGCACTCATTATTTAGTACTTACAAGGAAAAGATTTTACCGTGGTTTGAGCAGCTACTTCCTTTAATTGTAAATCTAATT
TGTTCTAGTAGGCCATGGCCAGACAGACAATGGGGATTATGCATATTTGATGATATCATAGAGCACTGTAGTCCAACCTC
ATTTAAATATGTAGAATATTTTCGGTGGCCGATGCTACTAAATATGCGGGATAACAACCCTGAAGTCAGGCAAGCTGCTG
CTTATGGCCTGGGTGTTATGGCGCAATTTGGTGGAGATGATTATCGTTCTTTATGTTCAGAAGCTGTTCCACTGCTGGTA
AAAGTTATCAAGTGTGCAAATTCCAAAACCAAAAAAAATGTCATTGCTACAGAGAACTGTATCTCAGCAGTAGGCAAGAT
TTTGAGGTTTAAGCCTAACTGTGTAAATGTAGATGAAGTTCTTCCACACTGGTTGTCATGGCTTCCACTACATGAGGATA
AAGAGGAAGCTATTCAGACTTTGAGTTTTCTTTGTGATTTAATTGAAAGTAACCACCCAGTTGTACTTGGTCCAAATAAT
TCCAATCTTCCGAAAATAATCAGTATAATTGCAGAAGGAAAAATTAATGAGACTATTAATTATGAAGATCCTTGTGCCAA
ACGTCTAGCTAATGTTGTGCGTCAGGTACAGACTTCTGAAGAATTATGGTTGGAATGCCTATCCCAACTTGATGATGAGC
ATCAGGAAGCCTTACAGGAGTTGCTGAATTTTGCTTGA

Alignment

ORF - retro_pvam_8 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.78 %
• Parental protein coverage: 58.8 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ETYENIPGQSKITFLLQAIRNTTAAEEARQMAAVLLRRLLSSAFDEVYPTLPSDVQTAIKSELLMIIQME
          E.YENIPG..K.TFLL.A.RN..A..E.RQMAA.LLRRLLSS.F.EVYP.LPSDVQ...K.EL......E
Retrocopy EIYENIPGLCKTTFLLDAVRNRRAGYEVRQMAAALLRRLLSSGFEEVYPNLPSDVQRDVKIELILAVKLE

Parental  TQSSMRKKICDIAAELARNLIDEDGNNQWPEGLKFLFDSVSSQNMGLREAALHIFWNFPGIFGNQQQHYL
          T..SMRKK.CDI.A.LARNLIDEDG.N.WPEGLKFL.DS..S.N..L.E.ALH.FW.FPGIFGNQ..H.L
Retrocopy THASMRKKLCDIFAVLARNLIDEDGTNHWPEGLKFLIDSIYSKNVVLWEVALHVFWHFPGIFGNQERHDL

Parental  DVIKRMLVQCMQDQEHPSIRTLSARATAAFILANEHNVALFKHFADLLPGFLQAVNDSCYQNDDSVLKSL
          D.IKR.L.QC.QDQEHP.IRTLSARA.AAF.LANE.N.ALFK.FADLLPG.LQAVNDSCYQ.DDSVL.SL
Retrocopy DIIKRLLDQCIQDQEHPAIRTLSARAAAAFVLANENNIALFKDFADLLPGILQAVNDSCYQDDDSVLESL

Parental  VEIADTVPKYLRPHLEATLQLSLKLCGDTSLNNMQRQLALEVIVTLSETAAAMLRKHTNIIAQTIPQMLA
          VEIADTVPKYL.P.LE.TLQLSLKLCGD..L.N.QRQLALEVIVTLSETA..ML.KHTNIIAQ..P..LA
Retrocopy VEIADTVPKYLGPYLEDTLQLSLKLCGDSRLSNLQRQLALEVIVTLSETATPMLKKHTNIIAQAVPHILA

Parental  MMVDLEEDEDWANADELEDDDFDSNAVAGESALDRMACGLGGKLVLPMIKEHIMQMLQNPDWKYRHAGLM
          MMVDL..DEDW.NADE.E.DDFDSNAVA.ESALDR.ACGLGGKLVLP..KEHIMQMLQ.PDWKYRHAGLM
Retrocopy MMVDLQDDEDWVNADEMEEDDFDSNAVAAESALDRLACGLGGKLVLPITKEHIMQMLQSPDWKYRHAGLM

Parental  ALSAIGEGCHQQMEGILNEIVNFVLLFLQDPHPRVRYAACNAVGQMATDFAPGFQKKFHEKVIAALLQTM
          ALSAIGEGCHQQME.IL.E.VN.VLLFLQDPHPRVR.AAC...GQMATDFAP.FQKKFHE.VIAALL.TM
Retrocopy ALSAIGEGCHQQMEPILDETVNSVLLFLQDPHPRVRGAACTTLGQMATDFAPNFQKKFHETVIAALLRTM

Parental  EDQGNQRVQAHAAAALINFTEDCPKSLLIPYLDNLVKHLHSIMVLKLQELIQKGTKLVLEQVVTSIASVA
          E.QGNQRVQ.HAA.AL..F.EDCPKSLL..YLD..V..LHSI.V.KLQELI..GTKL.LEQ.VT.IASVA
Retrocopy ENQGNQRVQSHAASALVIFIEDCPKSLLVLYLDSMVRNLHSILVIKLQELIRNGTKLALEQLVTTIASVA

Parental  DTAEEKFVPYYDLFMPSLKHIVENAVQKELRLLRGKTIECISLIGLAVGKEKFMQDASDVMQLLLKTQTD
          DT.EEKFVPYYD.FMPSLKHIVE.AVQKEL.LL.GKTIECIS..GLAVGKEKFMQDAS.VMQLLLKTQ.D
Retrocopy DTIEEKFVPYYDIFMPSLKHIVELAVQKELKLLKGKTIECISHVGLAVGKEKFMQDASNVMQLLLKTQSD

Parental  FSDMEDDDPQISYMISAWARMCKILGKEFQQYLPVVMGPLMKTASIKPEVALLDTQDMENMSDDDGWEFV
          ...MEDDDPQ.SYM.SAWARMCKILG..FQQYLP.V..PL.KTAS.KP.VALLDTQD.ENMSDDDGW.FV
Retrocopy LNNMEDDDPQTSYMVSAWARMCKILGNDFQQYLPLVIEPLIKTASAKPDVALLDTQDVENMSDDDGWQFV

Parental  NLGDQQSFGIKTAGLEEKSTACQML
          NLGDQQSFGIKT.GLE.K.TACQML
Retrocopy NLGDQQSFGIKTSGLEAKATACQML

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_8 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 21 parental genes, and 25 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000003784	1 retrocopy	retro_amel_3,
Bos taurus	ENSBTAG00000039374	1 retrocopy	retro_btau_104,
Canis familiaris	ENSCAFG00000005561	1 retrocopy	retro_cfam_452,
Choloepus hoffmanni	ENSCHOG00000006061	1 retrocopy	retro_chof_11,
Cavia porcellus	ENSCPOG00000004827	2 retrocopies	retro_cpor_265, retro_cpor_57,
Equus caballus	ENSECAG00000014808	1 retrocopy	retro_ecab_37,
Felis catus	ENSFCAG00000025657	1 retrocopy	retro_fcat_24,
Homo sapiens	ENSG00000065150	1 retrocopy	retro_hsap_57,
Gorilla gorilla	ENSGGOG00000008742	1 retrocopy	retro_ggor_47,
Loxodonta africana	ENSLAFG00000016190	1 retrocopy	retro_lafr_22,
Myotis lucifugus	ENSMLUG00000006500	1 retrocopy	retro_mluc_295,
Mus musculus	ENSMUSG00000030662	2 retrocopies	retro_mmus_251, retro_mmus_3683,
Nomascus leucogenys	ENSNLEG00000007831	2 retrocopies	retro_nleu_1610, retro_nleu_2482,
Oryctolagus cuniculus	ENSOCUG00000003898	1 retrocopy	retro_ocun_143,
Otolemur garnettii	ENSOGAG00000007570	1 retrocopy	retro_ogar_169,
Pongo abelii	ENSPPYG00000005458	1 retrocopy	retro_pabe_172,
Pan troglodytes	ENSPTRG00000005984	2 retrocopies	retro_ptro_49, retro_ptro_745,
Pteropus vampyrus	ENSPVAG00000004516	1 retrocopy	retro_pvam_8 ,
Rattus norvegicus	ENSRNOG00000010989	1 retrocopy	retro_rnor_240,
Sus scrofa	ENSSSCG00000009509	1 retrocopy	retro_sscr_24,
Ictidomys tridecemlineatus	ENSSTOG00000011164	1 retrocopy	retro_itri_32,