RetrogeneDB ID:

retro_etel_1730

Retrocopy
location
Organism:Lesser hedgehog tenrec (Echinops telfairi)
Coordinates:scaffold_290316:345..834(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSETEG00000007560
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_etel_1730
ATGCCTTCAATTAAGTCACAGGGTTCTGATAGAGAGATATCTGAAGTCGATGTGGAAGTTGCCAAGCAATCGGTGACTAT
CCAGACCATGTTGGAAGGTTTGGGAGTGGATAATGAGGGAGATGATGATCCAGCTCCTTTCCCACATGTTGATGCAGCAA
TAGTTAAAAAGGGCATTCAGTGGTGCACCCACCACAAGGATCACCCGCCTCCTCCTGAGGATGATGAGAACGAAGAGAAA
GGAACGGTTGAAATCCCATTTGGGGACCAAGAATTCCTGAACGTTCTGACCAGGGAACAGTCTTTGAACTTATTCTGGGT
GCAAACTACTTAGACATCAAAGGTTTGCTTGACGTTACATGCAAAACCATGGCCAATATGACCAAGGGAAAACTCCTGAG
GAGATTCGCCAGACCTTCAATGTCAAAAACAACTTTACTGAAGAGGAGGTGCCCAGGTGCGCAAAGAGAGCCAGTGGTGT
GAAGAGAAG

ORF - retro_etel_1730 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 71.26 %
Parental protein coverage: 100. %
Number of stop codons detected: 1
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalMPSIKLQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMDDEGDDDPVPLPNVNAAILKKVIQWCTH-KDDPP
MPSIK.Q.SD.EI.EVDVE.AKQSVTI.TMLE.LG.D.EGDDDP.P.P.V.AAI.KK.IQWCTH.KD.PP
RetrocopyMPSIKSQGSDREISEVDVEVAKQSVTIQTMLEGLGVDNEGDDDPAPFPHVDAAIVKKGIQWCTHHKDHPP
ParentalPPE-DD-ENKEKRTDDIVWDQEFL-KVDQGTLFELILAANYLDIKGLLDVTCKTVANMIK-GKTPEEIRK
PPE.D..E..E.......W........DQGT.FELIL.ANYLDIKGLLDVTCKT.ANM.K.GKTPEEIR.
RetrocopyPPEDDE<ERRERNG*NPIWGPRIPERSDQGTVFELILGANYLDIKGLLDVTCKTMANMTK<GKTPEEIRQ
ParentalTFNIKNDFTEEE-EAQVRKENQWCEEK
TFN.KN.FTEEE..AQVRKE.QWCEEK
RetrocopyTFNVKNNFTEEE<GAQVRKESQWCEEK

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_1730 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 31 parental genes, and 173 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000178101 retrocopy
retro_amel_897,
Bos taurus ENSBTAG000000251915 retrocopies
retro_btau_10, retro_btau_1062, retro_btau_1253, retro_btau_1444, retro_btau_1687,
Canis familiaris ENSCAFG000000009945 retrocopies
retro_cfam_1613, retro_cfam_779, retro_cfam_813, retro_cfam_889, retro_cfam_965,
Callithrix jacchus ENSCJAG000000136131 retrocopy
retro_cjac_112,
Cavia porcellus ENSCPOG000000051648 retrocopies
retro_cpor_1038, retro_cpor_1133, retro_cpor_1345, retro_cpor_1446, retro_cpor_223, retro_cpor_243, retro_cpor_830, retro_cpor_832,
Dasypus novemcinctus ENSDNOG000000129999 retrocopies
retro_dnov_1216, retro_dnov_1338, retro_dnov_2433, retro_dnov_2526, retro_dnov_2647, retro_dnov_281, retro_dnov_286, retro_dnov_389, retro_dnov_776,
Dipodomys ordii ENSDORG000000029123 retrocopies
retro_dord_338, retro_dord_512, retro_dord_720,
Equus caballus ENSECAG000000039312 retrocopies
retro_ecab_466, retro_ecab_789,
Echinops telfairi ENSETEG00000007560 5 retrocopies
retro_etel_1730 , retro_etel_515, retro_etel_758, retro_etel_762, retro_etel_811,
Felis catus ENSFCAG000000311401 retrocopy
retro_fcat_653,
Homo sapiens ENSG0000011355810 retrocopies
retro_hsap_2193, retro_hsap_2596, retro_hsap_3321, retro_hsap_3346, retro_hsap_3863, retro_hsap_4161, retro_hsap_4163, retro_hsap_4164, retro_hsap_724, retro_hsap_972,
Gorilla gorilla ENSGGOG000000229307 retrocopies
retro_ggor_1288, retro_ggor_1300, retro_ggor_2601, retro_ggor_2602, retro_ggor_2796, retro_ggor_2797, retro_ggor_778,
Latimeria chalumnae ENSLACG000000165991 retrocopy
retro_lcha_103,
Loxodonta africana ENSLAFG000000168321 retrocopy
retro_lafr_83,
Microcebus murinus ENSMICG000000175883 retrocopies
retro_mmur_270, retro_mmur_803, retro_mmur_997,
Myotis lucifugus ENSMLUG0000002291913 retrocopies
retro_mluc_1455, retro_mluc_1738, retro_mluc_1895, retro_mluc_2009, retro_mluc_2260, retro_mluc_2261, retro_mluc_2520, retro_mluc_2527, retro_mluc_2557, retro_mluc_267, retro_mluc_383, retro_mluc_841, retro_mluc_944,
Macaca mulatta ENSMMUG000000130467 retrocopies
retro_mmul_1171, retro_mmul_2082, retro_mmul_2091, retro_mmul_2508, retro_mmul_654, retro_mmul_795, retro_mmul_919,
Monodelphis domestica ENSMODG000000141684 retrocopies
retro_mdom_1173, retro_mdom_155, retro_mdom_1648, retro_mdom_929,
Mus musculus ENSMUSG000000363091 retrocopy
retro_mmus_2518,
Nomascus leucogenys ENSNLEG000000080517 retrocopies
retro_nleu_1171, retro_nleu_1615, retro_nleu_1667, retro_nleu_2290, retro_nleu_323, retro_nleu_472, retro_nleu_827,
Oryctolagus cuniculus ENSOCUG0000002250510 retrocopies
retro_ocun_1119, retro_ocun_1228, retro_ocun_1242, retro_ocun_1420, retro_ocun_1453, retro_ocun_1572, retro_ocun_1784, retro_ocun_397, retro_ocun_448, retro_ocun_553,
Otolemur garnettii ENSOGAG000000287078 retrocopies
retro_ogar_1446, retro_ogar_1510, retro_ogar_1511, retro_ogar_1890, retro_ogar_2019, retro_ogar_2728, retro_ogar_3306, retro_ogar_581,
Ochotona princeps ENSOPRG000000066377 retrocopies
retro_opri_1199, retro_opri_188, retro_opri_23, retro_opri_513, retro_opri_547, retro_opri_902, retro_opri_955,
Pongo abelii ENSPPYG000000157837 retrocopies
retro_pabe_1915, retro_pabe_199, retro_pabe_2072, retro_pabe_2736, retro_pabe_2756, retro_pabe_626, retro_pabe_824,
Pteropus vampyrus ENSPVAG000000124274 retrocopies
retro_pvam_1040, retro_pvam_1137, retro_pvam_1269, retro_pvam_503,
Rattus norvegicus ENSRNOG000000058286 retrocopies
retro_rnor_1391, retro_rnor_1392, retro_rnor_1465, retro_rnor_1888, retro_rnor_2166, retro_rnor_2333,
Sorex araneus ENSSARG000000083074 retrocopies
retro_sara_241, retro_sara_446, retro_sara_492, retro_sara_609,
Tupaia belangeri ENSTBEG0000001554415 retrocopies
retro_tbel_1227, retro_tbel_1279, retro_tbel_1327, retro_tbel_1758, retro_tbel_1787, retro_tbel_1903, retro_tbel_1905, retro_tbel_240, retro_tbel_3024, retro_tbel_3267, retro_tbel_3848, retro_tbel_405, retro_tbel_4095, retro_tbel_528, retro_tbel_711,
Tarsius syrichta ENSTSYG0000001069611 retrocopies
retro_tsyr_1037, retro_tsyr_1370, retro_tsyr_1400, retro_tsyr_1896, retro_tsyr_1924, retro_tsyr_2058, retro_tsyr_210, retro_tsyr_336, retro_tsyr_396, retro_tsyr_464, retro_tsyr_762,
Tursiops truncatus ENSTTRG000000168586 retrocopies
retro_ttru_1344, retro_ttru_1764, retro_ttru_1801, retro_ttru_656, retro_ttru_657, retro_ttru_961,
Vicugna pacos ENSVPAG000000015831 retrocopy
retro_vpac_279,




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