RetrogeneDB ID:

retro_etel_95

Retrocopy
location
Organism:Lesser hedgehog tenrec (Echinops telfairi)
Coordinates:GeneScaffold_1722:105759..106808(+)
Located in intron of:ENSETEG00000000893
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSETEG00000007881
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_etel_95
GCACCCAGCATCCATGGGGCTCTGGTGGCCGCGGCGTGTCCGTGTCGTCCGCTCGCTTCGTGTCCTCGTCCTCCTCCGGG
GACTATGGCGGCGGCTATGCAGGCGTCCTGTCCACGTCCGACGGTCTCCTCTCCGGGAACAAGAAGATCGCCATGCAGAA
CCTCAACGACCACCTAGCCTCCTACCCGGACAAGATGCGCACCCTGGAGACAGCCAACACGGAGCTGGAGGTGAAGATCC
GCAACTGGTACCAGAAGCAGGGCCCGGGGCCCGCCCGCGACTACAGCCACTACTACGAGACCATCGAGGACCTGCGGGAC
CAGATTCTCAGTGCCACCATCCAGAACTCCAAGGTCGTGCTGCAGATCAACAACGCCTGCCCGGCGGCGGATGACTTCCG
CACCAAGTTCGAGATGGAGCTGAACCTGCATGTGAGTGTGGAGGCGGATATCAATGGGCTGCGCCTGGTGCTGAACCAGC
TGACGCTGGCCCGCGCCAACCTGGAGATGCAGATCGAAGGGCTGAAGGAGGAGCTGGCCTTCCTGAAGAAGAACCACGAG
GCGGAAATCAGCAGCCTGAAGGCCCAGGTGCAGGGCCAGGTCAGTGTGGAGGGGGATTCTGCACCAGGCATCGACCTGGC
CAAGATCCTGAACGGCATGAGGAGCCAGTATGAGATCATGGCCGAGAAGAACTGGAAGGATGCCTAAGCGTGGTTCATTA
GCCGGACTGAGAACCTGAAATTGGAGGTCGCTGGCCACACAGAGAAGCTCCAGGTCAGCAAGACAGATGTAACTGACCTG
CGGTGGACGCTCCAGAGCCTGGAGATTGAGCTGCAGTCACAGCTGAGCATGAAAGCCGCCCTGGAAGGCACCCTGGCGGA
GACGGTGGCGCACTTTGGAGTCCATTTGGTGCAGATCCAAGTGATGGTAATAGCATGGAGGCCCAGCTGCGCGAAGCGCA
CTCTGACGTGGAGGGCGGAACCAGGAATACCAGAAGCTTTGGGGCATCAAGTCGCGGCTGGAACAGCGCTCACCACCTAT
CGCAGCCTG

ORF - retro_etel_95 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 82.54 %
Parental protein coverage: 87.75 %
Number of stop codons detected: 1
Number of frameshifts detected: 4


Retrocopy - Parental Gene Alignment:

ParentalAPSIHG-GSGGRGVSVSSARFVSSSSSGGYGSGYGGVLSTSDGLLSGNEKITMQNLNDRLASYLDKVRAL
APSIHG.GSGGRGVSVSSARFVSSSSSG.YG.GY.GVLSTSDGLLSGN.KI.MQNLND.LASY.DK.R.L
RetrocopyAPSIHG<GSGGRGVSVSSARFVSSSSSGDYGGGYAGVLSTSDGLLSGNKKIAMQNLNDHLASYPDKMRTL
ParentalETANTDLEVKIRDWYQKQGPGPARDYSHYYKTIEDLRDQILGATIQNSKVVLQIDNARLAADDFRTKFET
ETANT.LEVKIR.WYQKQGPGPARDYSHYY.TIEDLRDQIL.ATIQNSKVVLQI.NA..AADDFRTKFE.
RetrocopyETANTELEVKIRNWYQKQGPGPARDYSHYYETIEDLRDQILSATIQNSKVVLQINNACPAADDFRTKFEM
ParentalEQALRVSVEADINGLRRVLDELTLARADLEMQIEGLKEELAFLKKNHEEEISVLKAQVGGQVSVEVDSTP
E..L.VSVEADINGLR.VL..LTLARA.LEMQIEGLKEELAFLKKNHE.EIS.LKAQV.GQVSVE.DS.P
RetrocopyELNLHVSVEADINGLRLVLNQLTLARANLEMQIEGLKEELAFLKKNHEAEISSLKAQVQGQVSVEGDSAP
ParentalGIDLAKILNDMRSQYELMAEKNRKDAEAWFIKQTEELKLEVDVHTEKLQVSKTEVTDLRRTLQSHEIELQ
GIDLAKILN.MRSQYE.MAEKN.KDA.AWFI..TE.LKLEV..HTEKLQVSKT.VTDLR.TLQS.EIELQ
RetrocopyGIDLAKILNGMRSQYEIMAEKNWKDA*AWFISRTENLKLEVAGHTEKLQVSKTDVTDLRWTLQSLEIELQ
ParentalSQLSMKAALEGTLAETEARFGAHLAQIQAMV-SSMEAQLSEVRSDME-RQNQEYQLLLGIKSRLEQE-IA
SQLSMKAALEGTLAET.A.FG.HL.QIQ.MV..SMEAQL.E..SD.E...NQEYQ.L.GIKSRLEQ....
RetrocopySQLSMKAALEGTLAETVAHFGVHLVQIQVMV<NSMEAQLREAHSDVE<GRNQEYQKLWGIKSRLEQR<LT
ParentalTYRSL
TYRSL
RetrocopyTYRSL

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_95 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 14 parental genes, and 45 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000297569 retrocopies
retro_cjac_1151, retro_cjac_1812, retro_cjac_2347, retro_cjac_2646, retro_cjac_3108, retro_cjac_3198, retro_cjac_3237, retro_cjac_3358, retro_cjac_633,
Equus caballus ENSECAG000000140862 retrocopies
retro_ecab_76, retro_ecab_931,
Echinops telfairi ENSETEG00000007881 6 retrocopies
retro_etel_1217, retro_etel_1319, retro_etel_191, retro_etel_480, retro_etel_685, retro_etel_95 ,
Homo sapiens ENSG000001713453 retrocopies
retro_hsap_3486, retro_hsap_585, retro_hsap_959,
Gorilla gorilla ENSGGOG000000169013 retrocopies
retro_ggor_2352, retro_ggor_518, retro_ggor_773,
Macropus eugenii ENSMEUG000000161583 retrocopies
retro_meug_1860, retro_meug_403, retro_meug_826,
Macaca mulatta ENSMMUG000000186534 retrocopies
retro_mmul_1770, retro_mmul_717, retro_mmul_774, retro_mmul_790,
Nomascus leucogenys ENSNLEG000000107873 retrocopies
retro_nleu_1609, retro_nleu_2204, retro_nleu_800,
Oryctolagus cuniculus ENSOCUG000000161321 retrocopy
retro_ocun_1884,
Otolemur garnettii ENSOGAG000000243061 retrocopy
retro_ogar_1301,
Ochotona princeps ENSOPRG000000079082 retrocopies
retro_opri_337, retro_opri_673,
Pongo abelii ENSPPYG000000084163 retrocopies
retro_pabe_2880, retro_pabe_603, retro_pabe_820,
Pan troglodytes ENSPTRG000000091683 retrocopies
retro_ptro_2074, retro_ptro_2359, retro_ptro_430,
Ictidomys tridecemlineatus ENSSTOG000000144032 retrocopies
retro_itri_1514, retro_itri_697,


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