RetrogeneDB ID:

retro_vpac_624

Retrocopy
location
Organism:Alpaca (Vicugna pacos)
Coordinates:scaffold_81456:2872..3226(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSVPAG00000010983
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:NXT2
Ensembl ID:ENSVPAG00000007314
Aliases:None
Description:nuclear transport factor 2-like export factor 2 [Source:HGNC Symbol;Acc:18151]


Retrocopy-Parental alignment summary:






>retro_vpac_624
GAGGCCTCCTCCTGTGGACCAGAGATGGCGTCCGTGGACTTCAAGACCTACGTGGACCAGGCCTGCCGCGCGGCGGAGGA
GTTCGTGAACGTGTACTACAGCACTATGGACAAGCGGCGGCGCCTGCTGTCCCGCCTGTACTTGGGCACGGCCACCCTGG
TGTGGAACGGGAACGCCGTCTCTGGACAGGATTTCAGAACAAGGGTCCTTCTAGAGACGCTGCCTTCTAGAGAGTTCCAA
ATCAACACGGTAAACTGCCAGCCCGTTCACGATGAAGCCACCTCCAGCCAGACCACTGTCCTCGTGGTGATATGTGGGAC
AGAAAAGTCAGAGGTCAGCAAAGAGAGGCACTTC

ORF - retro_vpac_624 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 62.71 %
Parental protein coverage: 59.09 %
Number of stop codons detected: 0
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalQAASYSPMAFSVDFKTYVDQACRAAEEFVNIYYETMDKRRRALTRLYLDKATLIWNGNVVTGLEALTN-F
.A.S..P...SVDFKTYVDQACRAAEEFVN.YY.TMDKRRR.L.RLYL..ATL.WNGN.V.G....T...
RetrocopyEASSCGPEMASVDFKTYVDQACRAAEEFVNVYYSTMDKRRRLLSRLYLGTATLVWNGNAVSGQDFRTRVL
ParentalFEMLPSSEFQVNMLDCQPVHEQATQAQTTVLVVTSGTVKFDGNKQHYF
.E.LPS.EFQ.N...CQPVH..AT..QTTVLVV..GT.K....K...F
RetrocopyLETLPSREFQINTVNCQPVHDEATSSQTTVLVVICGTEKSEVSKERHF

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_624 retrocopy.

TSS - click to see more details

Vicugna pacos was not studied using FANTOM5 data.

Lab - click to see more details

retro_vpac_624 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 28 parental genes, and 36 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000179991 retrocopy
retro_amel_59,
Bos taurus ENSBTAG000000207391 retrocopy
retro_btau_118,
Canis familiaris ENSCAFG000000285741 retrocopy
retro_cfam_1137,
Callithrix jacchus ENSCJAG000000073691 retrocopy
retro_cjac_98,
Cavia porcellus ENSCPOG000000033101 retrocopy
retro_cpor_29,
Dipodomys ordii ENSDORG000000107141 retrocopy
retro_dord_2,
Echinops telfairi ENSETEG000000080022 retrocopies
retro_etel_1926, retro_etel_1979,
Felis catus ENSFCAG000000022401 retrocopy
retro_fcat_20,
Homo sapiens ENSG000001018881 retrocopy
retro_hsap_80,
Gorilla gorilla ENSGGOG000000135931 retrocopy
retro_ggor_67,
Loxodonta africana ENSLAFG000000071161 retrocopy
retro_lafr_124,
Microcebus murinus ENSMICG000000145113 retrocopies
retro_mmur_149, retro_mmur_1531, retro_mmur_25,
Myotis lucifugus ENSMLUG000000006313 retrocopies
retro_mluc_1513, retro_mluc_160, retro_mluc_473,
Macaca mulatta ENSMMUG000000132041 retrocopy
retro_mmul_140,
Monodelphis domestica ENSMODG000000213431 retrocopy
retro_mdom_1611,
Mustela putorius furoENSMPUG000000039731 retrocopy
retro_mputfur_74,
Mus musculus ENSMUSG000000422711 retrocopy
retro_mmus_12,
Oryctolagus cuniculus ENSOCUG000000082611 retrocopy
retro_ocun_210,
Procavia capensis ENSPCAG000000080061 retrocopy
retro_pcap_9,
Pongo abelii ENSPPYG000000206251 retrocopy
retro_pabe_101,
Pteropus vampyrus ENSPVAG000000061491 retrocopy
retro_pvam_14,
Rattus norvegicus ENSRNOG000000191682 retrocopies
retro_rnor_2365, retro_rnor_254,
Sorex araneus ENSSARG000000093071 retrocopy
retro_sara_4,
Sus scrofa ENSSSCG000000125811 retrocopy
retro_sscr_8,
Ictidomys tridecemlineatus ENSSTOG000000052433 retrocopies
retro_itri_1138, retro_itri_141, retro_itri_793,
Tarsius syrichta ENSTSYG000000019241 retrocopy
retro_tsyr_42,
Tursiops truncatus ENSTTRG000000051151 retrocopy
retro_ttru_19,
Vicugna pacos ENSVPAG00000007314 1 retrocopy
retro_vpac_624 ,


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