RetrogeneDB ID:

retro_rnor_1201

Retrocopy
location
Organism:Rat (Rattus norvegicus)
Coordinates:16:69864142..69864448(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Acp1
Ensembl ID:ENSRNOG00000005260
Aliases:None
Description:Low molecular weight phosphotyrosine protein phosphatase [Source:UniProtKB/Swiss-Prot;Acc:P41498]


Retrocopy-Parental alignment summary:






>retro_rnor_1201
CCCCTTGACTATCAAGGGCAGAACTGTATGAGAAAACATGGTGTTCGCATGTAACATGTTGCACAGCAGATTACAAGAGA
AGACCTTGCCACATTCGATTATATACTATGTATGGATGAAAGCAATCTGAGAGATTTGAATACAAAAAGTAATCAAGTCA
AAAACTGCAAAGCTAAAATTGAGCTACTTGGGAGCTATGAGCCACAGAAAGAGCTCATTATTGAAGTTCACTATCATGGC
AATGACTCTGACTTGGAGCTGGTGTACCAGCAATGCCTTAGGTGCTGCAAGGCCTTCCTGGAGAAG

ORF - retro_rnor_1201 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 83.33 %
Parental protein coverage: 63.35 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalPPDYRGQNCMKKHGIHMQHIARQITREDFATFDYILCMDESNLRDLNRKSNQVKNCKAKIELLGSYDPQK
P.DY.GQNCM.KHG..M.H.A.QITRED.ATFDYILCMDESNLRDLN.KSNQVKNCKAKIELLGSY.PQK
RetrocopyPLDYQGQNCMRKHGVRM*HVAQQITREDLATFDYILCMDESNLRDLNTKSNQVKNCKAKIELLGSYEPQK
ParentalQLIIEDPYYGNDSDFEVVYQQCLRCCKAFLEK
.LIIE..Y.GNDSD.E.VYQQCLRCCKAFLEK
RetrocopyELIIEVHYHGNDSDLELVYQQCLRCCKAFLEK

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






(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP017611_brain 0 .00 RPM 10 .35 RPM
SRP017611_kidney 0 .00 RPM 22 .75 RPM
SRP017611_liver 0 .00 RPM 10 .56 RPM
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_1201 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_1201 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_rnor_1201 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 25 parental genes, and 250 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000095542 retrocopies
Bos taurus ENSBTAG000000204984 retrocopies
Choloepus hoffmanni ENSCHOG0000000389194 retrocopies
retro_chof_1010, retro_chof_1053, retro_chof_1073, retro_chof_1099, retro_chof_1100, retro_chof_1144, retro_chof_119, retro_chof_1190, retro_chof_121, retro_chof_1259, retro_chof_1265, retro_chof_1275, retro_chof_1330, retro_chof_1351, retro_chof_1359, retro_chof_1389, retro_chof_1390, retro_chof_1412, retro_chof_142, retro_chof_1444, retro_chof_1447, retro_chof_1508, retro_chof_1567, retro_chof_1570, retro_chof_1593, retro_chof_1632, retro_chof_1633, retro_chof_1658, retro_chof_1684, retro_chof_169, retro_chof_1698, retro_chof_17, retro_chof_1716, retro_chof_174, retro_chof_1799, retro_chof_1802, retro_chof_1815, retro_chof_1833, retro_chof_1838, retro_chof_1864, retro_chof_1941, retro_chof_1956, retro_chof_1993, retro_chof_2012, retro_chof_2041, retro_chof_2044, retro_chof_2091, retro_chof_2165, retro_chof_2192, retro_chof_2208, retro_chof_2228, retro_chof_2259, retro_chof_2344, retro_chof_2378, retro_chof_2384, retro_chof_2443, retro_chof_245, retro_chof_2478, retro_chof_2512, retro_chof_2532, retro_chof_2542, retro_chof_2551, retro_chof_261, retro_chof_262, retro_chof_2622, retro_chof_2636, retro_chof_2643, retro_chof_2653, retro_chof_2654, retro_chof_2678, retro_chof_2701, retro_chof_2705, retro_chof_2707, retro_chof_319, retro_chof_377, retro_chof_460, retro_chof_598, retro_chof_603, retro_chof_649, retro_chof_650, retro_chof_66, retro_chof_727, retro_chof_80, retro_chof_803, retro_chof_83, retro_chof_842, retro_chof_934, retro_chof_939, retro_chof_958, retro_chof_962, retro_chof_986, retro_chof_991, retro_chof_994, retro_chof_999,
Callithrix jacchus ENSCJAG000000116635 retrocopies
Dasypus novemcinctus ENSDNOG0000001738232 retrocopies
Equus caballus ENSECAG000000100791 retrocopy
Echinops telfairi ENSETEG0000001376418 retrocopies
Felis catus ENSFCAG000000267171 retrocopy
Homo sapiens ENSG000001437275 retrocopies
Gorilla gorilla ENSGGOG000000155775 retrocopies
Loxodonta africana ENSLAFG000000029664 retrocopies
Macropus eugenii ENSMEUG000000107333 retrocopies
Myotis lucifugus ENSMLUG000000177074 retrocopies
Macaca mulatta ENSMMUG000000170972 retrocopies
Monodelphis domestica ENSMODG000000257643 retrocopies
Mustela putorius furoENSMPUG000000127872 retrocopies
Mus musculus ENSMUSG0000004457311 retrocopies
Nomascus leucogenys ENSNLEG000000083596 retrocopies
Oryctolagus cuniculus ENSOCUG0000001287611 retrocopies
Otolemur garnettii ENSOGAG000000003015 retrocopies
Pongo abelii ENSPPYG000000126946 retrocopies
Pan troglodytes ENSPTRG000000116055 retrocopies
Rattus norvegicus ENSRNOG00000005260 11 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000025203 retrocopies
Tarsius syrichta ENSTSYG000000048647 retrocopies



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