RetrogeneDB ID: retro_pvam_12

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: scaffold_4728:63087..65046(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSPVAG00000004439
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: KCNA7
• Ensembl ID: ENSPVAG00000009577
• Aliases: None
• Description: potassium voltage-gated channel, shaker-related subfamily, member 7 [Source:HGNC Symbol;Acc:6226]

Sequence

>retro_pvam_12
ATGGAGGTTGCAATGGTGAGTGCGGAGAGCTCAGGGTGCAACAGTCACATGCCTTATGGTTATGCAGCCCAGGCCCGGGC
CCGGGAGCGGGAGAGGCTGGCTCACTCCAGGGCAGCGGCGGCAGCCGCTGTCGCAGCCGCCACGGCTGCTGTGGAAGGCA
GCGGGGGTTCTGGAGGGGGCTCCCACCACCACCACCAGTCTCGGGGATCCTGCACCTCCCACGACCCTCAGAGCAGCCGG
GGTAGTCGGAGAAGGAGGCGACAGAGGCCTGAGAAGAAGAAAGTCCACCACCGTCCCAGCAGCTTTCCTCATTGCTCCGA
CCTGATGCCCAGTGGCTCTGAGGAGAAGATCCTGAGAGAACTGAGTGAGGACGAGGGAGAGGAGGAGGAAGATGAGGAGG
AGGAAGAAGGGAGGTTTTACTACAGCGAAGATGACCACGGCGATGAGTGTTCCTACACAGACCTGCTGCCTCAGGACGAC
GGGGGTGGTGGCTACAGCTCGGTCCGCTACAGTGACTGTTGTGAACGTGTGGTGATAAATGTTTCAGGCCTGCGCTTTGA
GACCCAGATGAAAACTCTGGCCCAGTTTCCAGAGACCTTGTTGGGGGACCCTGAGAAGAGGACTCAGTACTTTGACCCTT
TGCGTAACGAGTATTTCTTTGACAGGAACAGGCCCAGCTTTGATGCCATCTTATATTATTACCAGTCAGGAGGCCGCCTG
AAGAGGCCCGTCAACGTCCCCTTTGATATCTTCACTGAGGAGGTGAAGTTCTATCAGTTGGGAGAGGAGGCCTTGCTCAA
GTTTCGGGAGGATGAGGGCTTTGTGAGAGAGGAGGAAGACAGAGCCTTGCCAGAGAATGAATTTAAAAAGCAAATTTGGC
TTCTCTTTGAGTATCCGGAGAGCTCCAGTCCAGCAAGGGGCATAGCCATCGTCTCTGTCTTGGTCATCTTAATCTCCATT
GTCATTTTCTGCCTGGAAACCTTGCCTGAGTTTAGGGACGACAGGGACCTCATCATGGCACTGAGTGCGGGCGGGCACAG
TGGGCTGCTGAACAACACCTCGGCGCCCCACCCGGAGAACTCAGGGCACACCATATTCAACGACCCCTTCTTCATCGTGG
AGACAGTCTGTATTGTTTGGTTTTCCTTTGAGTTTGTGGTTCGCTGTTTTGCTTGTCCCAGCCAAGCGCTCTTCTTCAAA
AACATCATGAACATCATTGACATTGTCTCCATTTTGCCTTACTTCATTACACTGGGCACCGATCTGGCCCAGCAACAGGG
GGGCGGCAACGGTCAGCAGCAGCAGGCCATGTCCTTTGCCATCCTCAGGATCATTCGTTTGGTCCGAGTATTCCGGATCT
TCAAACTCTCCAGGCACTCCAAAGGCCTGCAGATCCTGGGCCACACCCTAAGAGCCAGCATGCGGGAACTGGGCCTTCTG
ATCTTCTTCCTCTTCATTGGGGTCATCCTGTTTTCCAGCGCTGTGTATTTTGCGGAGGCGGATGAGCCTACGACCCACTT
CCAAAGCATCCCAGATGCGTTTTGGTGGGCTGTGGTGACCATGACAACTGTGGGCTATGGGGACATGAAGCCCATCACTG
TGGGGGGCAAGATCGTGGGGTCCCTGTGTGCCATTGCGGGTGTCTTAACCATTGCTTTGCCAGTGCCAGTGATTGTCTCT
AACTTTAACTATTTCTACCACAGAGAGACTGAAAATGAGGAACAGACACAGCTGACACAGAACGCAGTCAGTTGCCCATA
CCTCCCTTCTAATTTGCTGAAGAAATTTCGGAGCTCTACTTCTTCTTCCCTGGGGGACAAGTCAGAGTATCTAGAGATGG
AAGAAGGAGTTAAGGAATCTCTCTGTGCAAAGGAGGAGAAGTGTCAGGGGAAGGGGGATGACAGTGAGACAGATAAAAAC
AACTGTTCTAACGTGAAGGCTGTGGAGACCGATGTGTGA

Alignment

ORF - retro_pvam_12 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.64 %
• Parental protein coverage: 87.36 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  CCERVVLNVAGLRFETRARTLGRFPDTLLGDPARRRRFYDGARREYFFDRHRPSFDAVLYYYQSGGRLRR
          CCERVV.NV.GLRFET...TL..FP.TLLGDP..R....D..R.EYFFDR.RPSFDA.LYYYQSGGRL.R
Retrocopy CCERVVINVSGLRFETQMKTLAQFPETLLGDPEKRTQYFDPLRNEYFFDRNRPSFDAILYYYQSGGRLKR

Parental  PAHVPLDVFLEEVAFYGLGAAALARLREDEGCPVPPE-RPLPRRAFARQLWLLFEFPESSQAARVLAVVS
          P..VP.D.F.EEV.FY.LG..AL...REDEG.....E.R.LP...F..Q.WLLFE.PESS..AR..A.VS
Retrocopy PVNVPFDIFTEEVKFYQLGEEALLKFREDEGFVREEEDRALPENEFKKQIWLLFEYPESSSPARGIAIVS

Parental  VLVILVSIVVFCLETLPDFRDDRDSPGLAAVAVPAGPSPRLNG-SSPVPGPLPRTPFDDPFF-VETLCIC
          VLVIL.SIV.FCLETLP.FRDDRD...L.......G.S..LN..S.P.P.....T.F.DPFF.VET.CI.
Retrocopy VLVILISIVIFCLETLPEFRDDRD---LIMALSAGGHSGLLNNTSAPHPENSGHTIFNDPFFIVETVCIV

Parental  WFSFELLVRLLTCPSKA--FKNVMNLID-VAILPYLGAMGTELARHRGVG----QRAMSLAILRVIRLVR
          WFSFE..VR...CPS.A..FKN.MN.ID.V.ILPY....GT.LA...G.G....Q.AMS.AILR.IRLVR
Retrocopy WFSFEFVVRCFACPSQALFFKNIMNIIDIVSILPYFITLGTDLAQQQGGGNGQQQQAMSFAILRIIRLVR

Parental  VFRIFKLSRHSKGLQILGQTLRASMRELGILIFFLFIGVVLFSSAVYFAEVDRADSNFSSIPESF-WAVV
          VFRIFKLSRHSKGLQILG.TLRASMRELG.LIFFLFIGV.LFSSAVYFAE.D.....F.SIP..F.WAVV
Retrocopy VFRIFKLSRHSKGLQILGHTLRASMRELGLLIFFLFIGVILFSSAVYFAEADEPTTHFQSIPDAFWWAVV

Parental  TMTTVGYGDMAPVTVGGKIVGSLCAIAGVLTISLPVPVIVSNFSYFYHRETEGEE
          TMTTVGYGDM.P.TVGGKIVGSLCAIAGVLTI.LPVPVIVSNF.YFYHRETE.EE
Retrocopy TMTTVGYGDMKPITVGGKIVGSLCAIAGVLTIALPVPVIVSNFNYFYHRETENEE

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_12 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Pteropus vampyrus	ENSPVAG00000009577	1 retrocopy	retro_pvam_12 ,