RetrogeneDB ID:

retro_etel_1595

Retrocopy
location
Organism:Lesser hedgehog tenrec (Echinops telfairi)
Coordinates:scaffold_281627:69846..70394(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSETEG00000009613
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSETEG00000002467
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_etel_1595
GATGCCATTGACCAGATGTGGCTGCTGGTAGTGAGGACCTGGAGCCTCAATGAGAGGCACTATGGGATACTTACTTGGCC
CCAATAAGGGAGAAACTGCTGCCAAGCATGGCGAGGCCCAGGTCAAGATCTGGAGGTGCTCCTACAACATCCCACCACCG
CCCATAGAGCCAGCCCTCCCCTTCTACAGCAATATCGACAAGGACCACAGGTATGCAGACCTCACTGAAGAACAGCTGCC
CTGTGAGAGGCTGAAGGACACCATTGCCAGAGCCCTGCCCTTCTGAAATGAAGAAATCATTTCTCAGGTCAAGGAAGGCA
AATGGGTCCTGAAAGCAGCCCATTGCAACAGCCTCTGGTGCATTATCAAGCATCTGGAGGGGCTCTCGGAAGAGGCCATC
ATGGAACTGAACCTGCCTACCAGTATCCCCATCATCCATAAATTGGAGAAGAACTTGAAGCCTCTCAAGACCATGCCATT
ACTGGGGGACGAGGAGATTCGTGGTTAAAGCCATGGAAACCGTGGCCACCTAGGGAAAGGCCAAGAAG

ORF - retro_etel_1595 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 76.76 %
Parental protein coverage: 71.94 %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalDAIDQMWLPVVRTWRLNERHYGGLT-GLNKAETAAKHGEAQVKIWRRSYDIPPPPMESDHPFYSNISKDR
DAIDQMWL.VVRTW.LNERHYG.LT.G.NK.ETAAKHGEAQVKIWR.SY.IPPPP.E...PFYSNI.KD.
RetrocopyDAIDQMWLLVVRTWSLNERHYGILT>GPNKGETAAKHGEAQVKIWRCSYNIPPPPIEPALPFYSNIDKDH
ParentalRYADLTEDQLPSCESLKDTIARALPFWNEEIVPQIKEGKRVLIAAHGNSLRGIVKHLEGLSEEAIMELNL
RYADLTE.QLP.CE.LKDTIARALPF.NEEI..Q.KEGK.VL.AAH.NSL..I.KHLEGLSEEAIMELNL
RetrocopyRYADLTEEQLP-CERLKDTIARALPF*NEEIISQVKEGKWVLKAAHCNSLWCIIKHLEGLSEEAIMELNL
ParentalPTGIPIVYELDKNLKPIKAMQFLGDEET-VRKAMEAAAQ-GKAKK
PT.IPI...L.KNLKP.K.M..LGDEE..V.KAME..A..GKAKK
RetrocopyPTSIPIIHKLEKNLKPLKTMPLLGDEEI>VVKAMETVAT*GKAKK

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_1595 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 25 parental genes, and 107 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000126972 retrocopies
retro_btau_1611, retro_btau_472,
Canis familiaris ENSCAFG000000090621 retrocopy
retro_cfam_1297,
Callithrix jacchus ENSCJAG000000165751 retrocopy
retro_cjac_370,
Cavia porcellus ENSCPOG000000068444 retrocopies
retro_cpor_158, retro_cpor_539, retro_cpor_605, retro_cpor_660,
Erinaceus europaeus ENSEEUG000000056301 retrocopy
retro_eeur_680,
Echinops telfairi ENSETEG00000002467 1 retrocopy
retro_etel_1595 ,
Homo sapiens ENSG0000017131412 retrocopies
retro_hsap_1048, retro_hsap_1052, retro_hsap_1142, retro_hsap_2235, retro_hsap_2604, retro_hsap_3083, retro_hsap_3488, retro_hsap_4249, retro_hsap_4686, retro_hsap_4821, retro_hsap_885, retro_hsap_913,
Gorilla gorilla ENSGGOG0000002860213 retrocopies
retro_ggor_1220, retro_ggor_1500, retro_ggor_1667, retro_ggor_1824, retro_ggor_2061, retro_ggor_2118, retro_ggor_2353, retro_ggor_2849, retro_ggor_3005, retro_ggor_3034, retro_ggor_716, retro_ggor_738, retro_ggor_827,
Loxodonta africana ENSLAFG000000159791 retrocopy
retro_lafr_886,
Microcebus murinus ENSMICG000000076571 retrocopy
retro_mmur_135,
Myotis lucifugus ENSMLUG000000091176 retrocopies
retro_mluc_1280, retro_mluc_1595, retro_mluc_1741, retro_mluc_2246, retro_mluc_632, retro_mluc_745,
Macaca mulatta ENSMMUG000000200271 retrocopy
retro_mmul_119,
Monodelphis domestica ENSMODG000000042424 retrocopies
retro_mdom_1342, retro_mdom_1893, retro_mdom_610, retro_mdom_668,
Mustela putorius furoENSMPUG000000170451 retrocopy
retro_mputfur_1409,
Mus musculus ENSMUSG000000117526 retrocopies
retro_mmus_1741, retro_mmus_2221, retro_mmus_3012, retro_mmus_411, retro_mmus_729, retro_mmus_769,
Nomascus leucogenys ENSNLEG0000001380410 retrocopies
retro_nleu_1367, retro_nleu_1535, retro_nleu_1658, retro_nleu_2012, retro_nleu_2139, retro_nleu_2196, retro_nleu_2205, retro_nleu_2488, retro_nleu_2667, retro_nleu_280,
Oryctolagus cuniculus ENSOCUG000000056795 retrocopies
retro_ocun_1016, retro_ocun_1081, retro_ocun_350, retro_ocun_706, retro_ocun_976,
Pongo abelii ENSPPYG000000025309 retrocopies
retro_pabe_1325, retro_pabe_2309, retro_pabe_2554, retro_pabe_2639, retro_pabe_2881, retro_pabe_3389, retro_pabe_3639, retro_pabe_3749, retro_pabe_671,
Pan troglodytes ENSPTRG0000000280712 retrocopies
retro_ptro_1082, retro_ptro_1580, retro_ptro_1645, retro_ptro_1755, retro_ptro_2080, retro_ptro_2361, retro_ptro_2889, retro_ptro_2890, retro_ptro_3114, retro_ptro_3238, retro_ptro_634, retro_ptro_714,
Rattus norvegicus ENSRNOG000000505857 retrocopies
retro_rnor_1669, retro_rnor_2241, retro_rnor_2275, retro_rnor_2361, retro_rnor_2568, retro_rnor_691, retro_rnor_703,
Sarcophilus harrisii ENSSHAG000000182301 retrocopy
retro_shar_323,
Sus scrofa ENSSSCG000000105171 retrocopy
retro_sscr_373,
Ictidomys tridecemlineatus ENSSTOG000000259551 retrocopy
retro_itri_1187,
Tupaia belangeri ENSTBEG000000059135 retrocopies
retro_tbel_1677, retro_tbel_1708, retro_tbel_2756, retro_tbel_3667, retro_tbel_563,
Drosophila melanogaster FBgn00148691 retrocopy
retro_dmel_57,


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