RetrogeneDB ID:

retro_vpac_92

Retrocopy
location
Organism:Alpaca (Vicugna pacos)
Coordinates:GeneScaffold_1734:61409..61720(+)
Located in intron of:ENSVPAG00000005680
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:TIMM17B
Ensembl ID:ENSVPAG00000009578
Aliases:None
Description:translocase of inner mitochondrial membrane 17 homolog B (yeast) [Source:HGNC Symbol;Acc:17310]


Retrocopy-Parental alignment summary:






>retro_vpac_92
GAGGAGTATGAGCGAGAGTTTTGCCCCGGAGAACTGTGGAAGACTGTGGTGGGGCCTTTATGATGGGTACCATAGATAGT
GGTGACTTTCAGGCAATTAAAGGTTTTCACCATTATCCAGTGGGAGTAAACCAGAAACTACAAGGGAGTTTGACAGCTAT
TAAAACCAGGCCTCCACAGTTGGAAGGTGGCTTTACAGTTTAGGGAGGTCTGTCTTCCATGACTGACTGCAGTATGGCTC
ATGTTAGAGGGAAAGAACATCTCTGGAACTCTGTCACAGGTGCTGCCTTTACAGGAGCCATGCCAGCAGCA

ORF - retro_vpac_92 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 53.33 %
Parental protein coverage: 60.0 %
Number of stop codons detected: 1
Number of frameshifts detected: 1


Retrocopy - Parental Gene Alignment:

ParentalEEYAREPCPW-RIVDDCGGAFTMGVIGGGVFQAIKGFRNAPVGIRHRLRGSV-AVRIR-ALIGXSFAVWG
EEY.RE.CP..R.V.DCGGAF.MG.I..G.FQAIKGF...PVG....L.GS..A...R.......F.V.G
RetrocopyEEYEREFCPG<RTVEDCGGAFMMGTIDSGDFQAIKGFHHYPVGVNQKLQGSLTAIKTRPPQLEGGFTV*G
ParentalGLFSTIDCGLVRLRGKEDPWNSITSGALTGAVLAA
GL.S..DC.....RGKE..WNS.T..A.TGA..AA
RetrocopyGLSSMTDCSMAHVRGKEHLWNSVTGAAFTGAMPAA

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






RNA-Seq - click to see more details

Vicugna pacos was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Vicugna pacos was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_vpac_92 retrocopy.

TSS - click to see more details

Vicugna pacos was not studied using FANTOM5 data.

Lab - click to see more details

retro_vpac_92 was not experimentally validated.

Retrocopy orthology:
Vicugna pacos 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.
Parental genes homology:
Parental genes homology involve 18 parental genes, and 28 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000124741 retrocopy
retro_amel_717,
Bos taurus ENSBTAG000000184964 retrocopies
retro_btau_1022, retro_btau_1550, retro_btau_1552, retro_btau_882,
Cavia porcellus ENSCPOG000000087682 retrocopies
retro_cpor_867, retro_cpor_893,
Dasypus novemcinctus ENSDNOG000000258972 retrocopies
retro_dnov_2282, retro_dnov_2406,
Felis catus ENSFCAG000000025692 retrocopies
retro_fcat_1429, retro_fcat_1654,
Gorilla gorilla ENSGGOG000000114271 retrocopy
retro_ggor_779,
Macropus eugenii ENSMEUG000000041741 retrocopy
retro_meug_2071,
Microcebus murinus ENSMICG000000059713 retrocopies
retro_mmur_1128, retro_mmur_1272, retro_mmur_232,
Myotis lucifugus ENSMLUG000000091481 retrocopy
retro_mluc_148,
Macaca mulatta ENSMMUG000000045471 retrocopy
retro_mmul_796,
Mustela putorius furoENSMPUG000000136751 retrocopy
retro_mputfur_1232,
Mus musculus ENSMUSG000000311581 retrocopy
retro_mmus_1509,
Nomascus leucogenys ENSNLEG000000079021 retrocopy
retro_nleu_1616,
Oryctolagus cuniculus ENSOCUG000000274182 retrocopies
retro_ocun_121, retro_ocun_1451,
Pteropus vampyrus ENSPVAG000000076431 retrocopy
retro_pvam_470,
Ictidomys tridecemlineatus ENSSTOG000000141731 retrocopy
retro_itri_83,
Tarsius syrichta ENSTSYG000000103962 retrocopies
retro_tsyr_1132, retro_tsyr_1703,
Vicugna pacos ENSVPAG00000009578 1 retrocopy
retro_vpac_92 ,


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