RetrogeneDB ID:

retro_etel_703

Retrocopy
location
Organism:Lesser hedgehog tenrec (Echinops telfairi)
Coordinates:scaffold_148531:498..977(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSETEG00000020350
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSETEG00000015057
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_etel_703
ATGGCGCCCAACAGGAATGGCATGATCCTGAAGCCCCACTTCCACAAGGACTGGCAGTGGCGTGTGTCCACGTGGTTCAA
CCAGCCGGCGCGGAAGATACGCAGGCGCAAGGCCCGACAAAGCTAAAGCCCGCCGCATCGCCCCGCGGCCCGCGTCCGGC
CCCATCCGGCCCATCGTGCGCTGCCCGACAGTGTGCTATCACACCAAAGTCCGTGCAGGCCGGGGCTTCAGCCTGTAAGA
GCTGAGGGTGGCCGGCATCCACAAGAAGGTGGCCCGGACCATCGGCATCTCCGTGGACCCCCGGAGGCGGAACAAGTCCA
CCGAGTCCTTGCAGGCCCAATGTGCAGCGACTTAAGGAGTACCGCTCCAAGCTCATCCTCTTCCCCAGGAAGCCCTCGAC
CCCCAAGAAGGGCGACAGCTCTGCGGAGGAACTCAAACTGGCCACACAGCTTACTGGACCTGTGATGCCCATCCGAAAT

ORF - retro_etel_703 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 95.65 %
Parental protein coverage: 74.65 %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMAPSRNGMILKPHFHKDWQRRVSTWFNQPARKIRRRKARQ-AKARRIAPRPASGPIRPIVRCPTVRYHTK
MAP.RNGMILKPHFHKDWQ.RVSTWFNQPARKIRRRKARQ.AKARRIAPRPASGPIRPIVRCPTV.YHTK
RetrocopyMAPNRNGMILKPHFHKDWQWRVSTWFNQPARKIRRRKARQ>AKARRIAPRPASGPIRPIVRCPTVCYHTK
ParentalVRAGRGFSLEELRVAGIHKKVARTIGISVDPRRRNKSTESLQA-NVQRLKEYRSKLILFPRKPSAPKKGD
VRAGRGFSL.ELRVAGIHKKVARTIGISVDPRRRNKSTESLQA.NVQRLKEYRSKLILFPRKPS.PKKGD
RetrocopyVRAGRGFSL*ELRVAGIHKKVARTIGISVDPRRRNKSTESLQA>NVQRLKEYRSKLILFPRKPSTPKKGD
ParentalSSAEELKLATQLTGPVMPIRN
SSAEELKLATQLTGPVMPIRN
RetrocopySSAEELKLATQLTGPVMPIRN

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_703 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 24 parental genes, and 153 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000170721 retrocopy
retro_acar_70,
Ailuropoda melanoleuca ENSAMEG000000011115 retrocopies
retro_amel_1268, retro_amel_1319, retro_amel_188, retro_amel_411, retro_amel_802,
Bos taurus ENSBTAG000000120442 retrocopies
retro_btau_716, retro_btau_817,
Canis familiaris ENSCAFG000000198405 retrocopies
retro_cfam_1135, retro_cfam_1919, retro_cfam_2122, retro_cfam_565, retro_cfam_897,
Callithrix jacchus ENSCJAG000000096725 retrocopies
retro_cjac_2607, retro_cjac_2961, retro_cjac_4054, retro_cjac_663, retro_cjac_747,
Cavia porcellus ENSCPOG000000273484 retrocopies
retro_cpor_1014, retro_cpor_1192, retro_cpor_1242, retro_cpor_491,
Echinops telfairi ENSETEG00000015057 4 retrocopies
retro_etel_1240, retro_etel_1382, retro_etel_1606, retro_etel_703 ,
Felis catus ENSFCAG000000033384 retrocopies
retro_fcat_1946, retro_fcat_706, retro_fcat_852, retro_fcat_866,
Homo sapiens ENSG0000016752612 retrocopies
retro_hsap_1377, retro_hsap_1810, retro_hsap_2070, retro_hsap_2430, retro_hsap_2485, retro_hsap_2824, retro_hsap_3207, retro_hsap_3281, retro_hsap_3443, retro_hsap_4074, retro_hsap_478, retro_hsap_951,
Gorilla gorilla ENSGGOG000000254276 retrocopies
retro_ggor_1548, retro_ggor_1963, retro_ggor_2231, retro_ggor_2732, retro_ggor_562, retro_ggor_767,
Loxodonta africana ENSLAFG000000040545 retrocopies
retro_lafr_659, retro_lafr_766, retro_lafr_827, retro_lafr_828, retro_lafr_829,
Microcebus murinus ENSMICG000000081914 retrocopies
retro_mmur_249, retro_mmur_288, retro_mmur_779, retro_mmur_908,
Myotis lucifugus ENSMLUG000000109506 retrocopies
retro_mluc_1431, retro_mluc_1436, retro_mluc_1549, retro_mluc_2022, retro_mluc_891, retro_mluc_991,
Macaca mulatta ENSMMUG000000179287 retrocopies
retro_mmul_2021, retro_mmul_2150, retro_mmul_2350, retro_mmul_579, retro_mmul_593, retro_mmul_737, retro_mmul_781,
Monodelphis domestica ENSMODG000000036634 retrocopies
retro_mdom_1001, retro_mdom_416, retro_mdom_439, retro_mdom_674,
Mus musculus ENSMUSG0000000074023 retrocopies
retro_mmus_1091, retro_mmus_1522, retro_mmus_1533, retro_mmus_1854, retro_mmus_2074, retro_mmus_2163, retro_mmus_2186, retro_mmus_2321, retro_mmus_2333, retro_mmus_2351, retro_mmus_25, retro_mmus_2668, retro_mmus_2718, retro_mmus_3097, retro_mmus_3274, retro_mmus_3453, retro_mmus_3489, retro_mmus_3500, retro_mmus_355, retro_mmus_3711, retro_mmus_692, retro_mmus_732, retro_mmus_863,
Nomascus leucogenys ENSNLEG0000001577413 retrocopies
retro_nleu_1156, retro_nleu_1202, retro_nleu_2299, retro_nleu_238, retro_nleu_2457, retro_nleu_2530, retro_nleu_2657, retro_nleu_273, retro_nleu_2732, retro_nleu_2885, retro_nleu_3016, retro_nleu_789, retro_nleu_892,
Ornithorhynchus anatinus ENSOANG000000067291 retrocopy
retro_oana_78,
Otolemur garnettii ENSOGAG000000264443 retrocopies
retro_ogar_1165, retro_ogar_1831, retro_ogar_1853,
Pan troglodytes ENSPTRG0000000848012 retrocopies
retro_ptro_1175, retro_ptro_1382, retro_ptro_1402, retro_ptro_1438, retro_ptro_1914, retro_ptro_2219, retro_ptro_2242, retro_ptro_2336, retro_ptro_2761, retro_ptro_359, retro_ptro_658, retro_ptro_946,
Pteropus vampyrus ENSPVAG000000151306 retrocopies
retro_pvam_1174, retro_pvam_1289, retro_pvam_1344, retro_pvam_228, retro_pvam_58, retro_pvam_616,
Rattus norvegicus ENSRNOG0000001533514 retrocopies
retro_rnor_1054, retro_rnor_1260, retro_rnor_158, retro_rnor_160, retro_rnor_1719, retro_rnor_1720, retro_rnor_1834, retro_rnor_1848, retro_rnor_2471, retro_rnor_2574, retro_rnor_2608, retro_rnor_2787, retro_rnor_2854, retro_rnor_682,
Sus scrofa ENSSSCG000000249743 retrocopies
retro_sscr_1044, retro_sscr_725, retro_sscr_884,
Vicugna pacos ENSVPAG000000005694 retrocopies
retro_vpac_310, retro_vpac_312, retro_vpac_576, retro_vpac_631,




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