RetrogeneDB ID:

retro_etel_691

Retrocopy
location
Organism:Lesser hedgehog tenrec (Echinops telfairi)
Coordinates:scaffold_145039:215..890(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RRM2
Ensembl ID:ENSETEG00000015797
Aliases:None
Description:ribonucleotide reductase M2 [Source:HGNC Symbol;Acc:10452]


Retrocopy-Parental alignment summary:






>retro_etel_691
ACCGTGCTCTGAGTCTCCGTGCTGCTCGCCATCATCGACCGCCAGCAGGGTCAGCTTTCTCCCATGAAGGAACTTAGCTT
GGTGGACAAGGAGAGCATGCCCCTGTCCCTCAGCAGTACCCCAGTCCTGGCCAGCCAGGCGGCGAGGATGAGCTTCCAGG
AGCCCGAGAGCCCCAACACACCTGGCACCAGTATGGAAGATGAGCTATTGCTGAAAGAGAATCCCTGCCACCTTGCCCTG
TTTCATAGTAACTACCATGATATTTGGAAGGTGTGCAGGAAAGCTGAGGCTTCCTTTTGGACAGCTGAGGAGGTGGCTCC
TTCTACGGACATTCAGCCCTGGGAAGTCCTGAAGTCAGGAACGAGAGCTTGTATATCACATGTTCTGACTTCCTTTGTAG
CAGGTGATGGAATAGTGAGTTAAAACTTGGTGGAGTGATTTAGTCATGAAGTCCAGATTACGGCGGGCCCCTATTTCGAT
GGCTTCCAAATTGCTATGGAAAACATACAGTCAGAAATGTATGGTCTACTTATTGATGCTTAGATTAAAAATTCCAAAGA
AAGGGAATATCTTCTTCAGTGCCATTAAGAAAATGCCTTGTGTGAAGAAGAAGGCAGATTGGGACCTTGCATTGGGATTG
GAGACAAAGAAGCTACCTATGGACAGTGTGCTGTG

ORF - retro_etel_691 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 66.52 %
Parental protein coverage: 72.17 %
Number of stop codons detected: 4
Number of frameshifts detected: 3


Retrocopy - Parental Gene Alignment:

ParentalTMLSVRVPLATIDPQQVQLSPLKALSLADKENTPPSLSSARVLASKAARKIFQEP-SPRAPASSVEDEPL
T.L.V.V.LA.ID.QQ.QLSP.K.LSL.DKE..P.SLSS..VLAS.AAR..FQEP.SP..P..S.EDE.L
RetrocopyTVL*VSVLLAIIDRQQGQLSPMKELSLVDKESMPLSLSSTPVLASQAARMSFQEPESPNTPGTSMEDELL
ParentalLKENPRRFVVFPIEYHDIWQMYKKAEASFWTAEEVDLSKDIQHWEALKPEERYFISHVLAFFAASDGIVN
LKENP.....F...YHDIW....KAEASFWTAEEV..S.DIQ.WE.LK...R..ISHVL..F.A.DGIV.
RetrocopyLKENPCHLALFHSNYHDIWKVCRKAEASFWTAEEVAPSTDIQPWEVLKSGTRACISHVLTSFVAGDGIVS
ParentalENLVERFSQEVQITEARCFYGFQIAMENIHSEMYSLLIDTYIKDSKEREYL-FNAIETMPCVKKKADW-A
.NLVE.FS.EVQIT....F.GFQIAMENI.SEMY.LLID..IK.SKEREYL.F.AI..MPCVKKKADW..
Retrocopy*NLVE*FSHEVQITAGPYFDGFQIAMENIQSEMYGLLIDA*IKNSKEREYL>FSAIKKMPCVKKKADW>T
ParentalLRW-IGDKEATYGERVV
L.W.IGDKEATYG...V
RetrocopyLHW>IGDKEATYGQCAV

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_691 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 19 parental genes, and 27 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000034091 retrocopy
retro_cfam_2113,
Callithrix jacchus ENSCJAG000000065333 retrocopies
retro_cjac_2134, retro_cjac_2950, retro_cjac_3851,
Cavia porcellus ENSCPOG000000086521 retrocopy
retro_cpor_8,
Erinaceus europaeus ENSEEUG000000097552 retrocopies
retro_eeur_421, retro_eeur_585,
Echinops telfairi ENSETEG00000015797 2 retrocopies
retro_etel_640, retro_etel_691 ,
Echinops telfairi ENSETEG000000203381 retrocopy
retro_etel_1219,
Homo sapiens ENSG000001718481 retrocopy
retro_hsap_4815,
Macropus eugenii ENSMEUG000000001213 retrocopies
retro_meug_1450, retro_meug_199, retro_meug_277,
Microcebus murinus ENSMICG000000127891 retrocopy
retro_mmur_1384,
Myotis lucifugus ENSMLUG000000105961 retrocopy
retro_mluc_794,
Macaca mulatta ENSMMUG000000020571 retrocopy
retro_mmul_2568,
Monodelphis domestica ENSMODG000000147631 retrocopy
retro_mdom_775,
Mus musculus ENSMUSG000000206492 retrocopies
retro_mmus_2472, retro_mmus_3073,
Nomascus leucogenys ENSNLEG000000137332 retrocopies
retro_nleu_2190, retro_nleu_3040,
Otolemur garnettii ENSOGAG000000070751 retrocopy
retro_ogar_2665,
Pongo abelii ENSPPYG000000126561 retrocopy
retro_pabe_3743,
Rattus norvegicus ENSRNOG000000232721 retrocopy
retro_rnor_331,
Sus scrofa ENSSSCG000000217421 retrocopy
retro_sscr_901,
Tursiops truncatus ENSTTRG000000172091 retrocopy
retro_ttru_603,


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