RetrogeneDB ID:

retro_etel_853

Retrocopy
location
Organism:Lesser hedgehog tenrec (Echinops telfairi)
Coordinates:scaffold_176212:1171..1535(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSETEG00000005473
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSETEG00000017076
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_etel_853
GAGGGGCAAGCCCTGATGTTCCATGGCCAAGGCCATCGTCTGGCAGCCCTAGGGAACAAACAAGTGCTCCTGGGTCAAAA
GGTGGTGATTGTGTACTGGGAAGGCAGCAACATATCTGACAACTGCTATAGAAACAAGTGGGAGTCCCGGTCCTTCCTCC
AAAAGTGCATGAACACCAACCCTCCCCATGGCCCCTACTACTTCCAGGCCCTCGATTGCATCTTCTGGAACACAATGTGG
GGCATGCTGCCCCAGTAGACCAAACAAGGCCAGCCTGCTCTGGACTGGTTTAAGGCACTCGATGGGATCAGCTCCTCCTA
TGAAGGAAAAGTAGATGGTGGTCCCTGTTGTCCTTAAGTTGGTG

ORF - retro_etel_853 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 58.73 %
Parental protein coverage: 61.58 %
Number of stop codons detected: 2
Number of frameshifts detected: 1


Retrocopy - Parental Gene Alignment:

ParentalEGQVLVLDGRGHLLGRLAAIVAKQVLLGRKVVVVRCEGINISGNFYRNKLKYLAFLRKRMNTNPSRGPYH
EGQ.L...G.GH...RLAA...KQVLLG.KVV.V..EG.NIS.N.YRNK.....FL.K.MNTNP..GPY.
RetrocopyEGQALMFHGQGH---RLAALGNKQVLLGQKVVIVYWEGSNISDNCYRNKWESRSFLQKCMNTNPPHGPYY
ParentalFRAPSRIFWRTVRGMLPHKTKRGQAALDRLKVFDGI-PPPYDKKKRMVVPAALKVV
F.A...IFW.T..GMLP..TK.GQ.ALD..K..DGI..PP..K.K.MVVP..LK.V
RetrocopyFQALDCIFWNTMWGMLPQ*TKQGQPALDWFKALDGI>APPM-KEK*MVVPVVLKLV

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






RNA-Seq - click to see more details

Echinops telfairi was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Echinops telfairi was not studied using ChIP-Seq data.

EST - click to see more details

Echinops telfairi was not studied using EST data.

TSS - click to see more details

Echinops telfairi was not studied using FANTOM5 data.

Lab - click to see more details

retro_etel_853 was not experimentally validated.

Retrocopy orthology:
Echinops telfairi 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 30 parental genes, and 192 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000140272 retrocopies
retro_amel_1332, retro_amel_1720,
Bos taurus ENSBTAG000000052963 retrocopies
retro_btau_1251, retro_btau_719, retro_btau_789,
Canis familiaris ENSCAFG000000298923 retrocopies
retro_cfam_1772, retro_cfam_924, retro_cfam_976,
Callithrix jacchus ENSCJAG0000000007216 retrocopies
retro_cjac_1130, retro_cjac_1706, retro_cjac_182, retro_cjac_197, retro_cjac_1997, retro_cjac_2170, retro_cjac_2322, retro_cjac_2467, retro_cjac_2468, retro_cjac_2665, retro_cjac_2699, retro_cjac_2755, retro_cjac_3009, retro_cjac_664, retro_cjac_941, retro_cjac_972,
Cavia porcellus ENSCPOG000000124172 retrocopies
retro_cpor_1000, retro_cpor_888,
Equus caballus ENSECAG000000158323 retrocopies
retro_ecab_388, retro_ecab_653, retro_ecab_773,
Erinaceus europaeus ENSEEUG000000140716 retrocopies
retro_eeur_168, retro_eeur_310, retro_eeur_315, retro_eeur_484, retro_eeur_562, retro_eeur_618,
Echinops telfairi ENSETEG00000017076 2 retrocopies
retro_etel_46, retro_etel_853 ,
Felis catus ENSFCAG000000091944 retrocopies
retro_fcat_1197, retro_fcat_1649, retro_fcat_324, retro_fcat_548,
Homo sapiens ENSG0000014254122 retrocopies
retro_hsap_1072, retro_hsap_1100, retro_hsap_1111, retro_hsap_1268, retro_hsap_1410, retro_hsap_2200, retro_hsap_2500, retro_hsap_293, retro_hsap_298, retro_hsap_3173, retro_hsap_3350, retro_hsap_3444, retro_hsap_3652, retro_hsap_3752, retro_hsap_3772, retro_hsap_397, retro_hsap_436, retro_hsap_615, retro_hsap_671, retro_hsap_730, retro_hsap_753, retro_hsap_967,
Gorilla gorilla ENSGGOG0000000293211 retrocopies
retro_ggor_12, retro_ggor_1739, retro_ggor_214, retro_ggor_2271, retro_ggor_2737, retro_ggor_334, retro_ggor_6, retro_ggor_615, retro_ggor_627, retro_ggor_846, retro_ggor_869,
Loxodonta africana ENSLAFG000000162133 retrocopies
retro_lafr_1160, retro_lafr_576, retro_lafr_810,
Microcebus murinus ENSMICG000000093186 retrocopies
retro_mmur_240, retro_mmur_283, retro_mmur_311, retro_mmur_359, retro_mmur_65, retro_mmur_736,
Myotis lucifugus ENSMLUG0000000494510 retrocopies
retro_mluc_1015, retro_mluc_1342, retro_mluc_1836, retro_mluc_1894, retro_mluc_2219, retro_mluc_2221, retro_mluc_2427, retro_mluc_2471, retro_mluc_2506, retro_mluc_675,
Macaca mulatta ENSMMUG0000000755114 retrocopies
retro_mmul_1100, retro_mmul_1256, retro_mmul_1638, retro_mmul_1756, retro_mmul_2179, retro_mmul_2249, retro_mmul_2352, retro_mmul_2399, retro_mmul_296, retro_mmul_500, retro_mmul_520, retro_mmul_547, retro_mmul_837, retro_mmul_924,
Mustela putorius furoENSMPUG000000026043 retrocopies
retro_mputfur_1418, retro_mputfur_853, retro_mputfur_935,
Mus musculus ENSMUSG000000741293 retrocopies
retro_mmus_1129, retro_mmus_1334, retro_mmus_20,
Nomascus leucogenys ENSNLEG0000000521123 retrocopies
retro_nleu_1173, retro_nleu_1429, retro_nleu_1568, retro_nleu_159, retro_nleu_1823, retro_nleu_1873, retro_nleu_1892, retro_nleu_1897, retro_nleu_2047, retro_nleu_228, retro_nleu_2398, retro_nleu_2415, retro_nleu_2463, retro_nleu_2614, retro_nleu_2789, retro_nleu_2928, retro_nleu_330, retro_nleu_392, retro_nleu_441, retro_nleu_475, retro_nleu_513, retro_nleu_744, retro_nleu_760,
Oryctolagus cuniculus ENSOCUG000000252589 retrocopies
retro_ocun_1038, retro_ocun_1077, retro_ocun_1392, retro_ocun_1462, retro_ocun_304, retro_ocun_674, retro_ocun_756, retro_ocun_786, retro_ocun_972,
Otolemur garnettii ENSOGAG000000046257 retrocopies
retro_ogar_1496, retro_ogar_211, retro_ogar_2254, retro_ogar_3148, retro_ogar_54, retro_ogar_596, retro_ogar_612,
Ochotona princeps ENSOPRG000000011943 retrocopies
retro_opri_316, retro_opri_764, retro_opri_806,
Procavia capensis ENSPCAG000000040864 retrocopies
retro_pcap_163, retro_pcap_290, retro_pcap_415, retro_pcap_416,
Pongo abelii ENSPPYG000000102511 retrocopy
retro_pabe_148,
Pan troglodytes ENSPTRG000000112981 retrocopy
retro_ptro_31,
Pteropus vampyrus ENSPVAG000000109583 retrocopies
retro_pvam_129, retro_pvam_625, retro_pvam_771,
Rattus norvegicus ENSRNOG0000002061810 retrocopies
retro_rnor_1073, retro_rnor_1112, retro_rnor_1212, retro_rnor_1292, retro_rnor_1357, retro_rnor_1742, retro_rnor_564, retro_rnor_593, retro_rnor_665, retro_rnor_988,
Sus scrofa ENSSSCG000000031664 retrocopies
retro_sscr_290, retro_sscr_300, retro_sscr_392, retro_sscr_743,
Tupaia belangeri ENSTBEG000000165793 retrocopies
retro_tbel_2417, retro_tbel_4071, retro_tbel_958,
Tarsius syrichta ENSTSYG000000087914 retrocopies
retro_tsyr_1363, retro_tsyr_437, retro_tsyr_620, retro_tsyr_920,
Tursiops truncatus ENSTTRG000000054857 retrocopies
retro_ttru_1304, retro_ttru_1736, retro_ttru_629, retro_ttru_735, retro_ttru_833, retro_ttru_971, retro_ttru_995,


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