RetrogeneDB ID:

retro_etel_946

Retrocopy
location
Organism:Lesser hedgehog tenrec (Echinops telfairi)
Coordinates:scaffold_189326:1648..2085(+)
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:ENSETEG00000006403
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_etel_946
TTAATTTCAGAAGGAAAATGGGTCAAGCTTGAAAAAACAACCTACATGGATCCTACTGGTAAAACTAGAACGTGGGAAAC
TGTGAAATGGACCAGGGGGAGAGGACAGTATGCAATAGTGTGGCCATTATCCCTGTGCTACGAAGAACTCTTCATTATGA
ATGTGTCATTCTTGTGAAACAGTTCTGACCACCCATGGGTGGTGTCTGCATAGAATTCCCGGCAGCTCTCATAGATGACA
ACGAAAGCCCGGAAGCAGCTGCCCTGCGGGAGTTGCAGGAAGACACCGGTTATAAAGGTGACTTTGCGGAATGTTTTCCG
GTTGTGTGTCTAGATCTAGGTTTGTCCAACTGTATTGTGCACATCGTGACGGTAACCATAACCATTATCGGAGACGATGC
TGACAACGTAAGACCTAAAGCGAAGCCTGGGGATGGA

ORF - retro_etel_946 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 83.67 %
Parental protein coverage: 72.59 %
Number of stop codons detected: 1
Number of frameshifts detected: 1


Retrocopy - Parental Gene Alignment:

ParentalLISEGKWVKLEKTTYMDPTGKTRTWETVKRTTRKGQAA-DGVAIIPVLQRTLHYECVVLVKQF-PPMGGY
LISEGKWVKLEKTTYMDPTGKTRTWETVK.T...GQ.A...VAIIPVL.RTLHYECV.LVKQF.PPMGG.
RetrocopyLISEGKWVKLEKTTYMDPTGKTRTWETVKWTRGRGQYA<NSVAIIPVLRRTLHYECVILVKQF*PPMGGV
ParentalCIEFPAGLIDDNESPEAAALRELEEETGYKGDFAECSPAVCLDPGLSNCTVHIVTVTIN--GDDAENVRP
CIEFPA.LIDDNESPEAAALREL.E.TGYKGDFAEC.P.VCLD.GLSNC.VHIVTVTI...GDDA.NVRP
RetrocopyCIEFPAALIDDNESPEAAALRELQEDTGYKGDFAECFPVVCLDLGLSNCIVHIVTVTITIIGDDADNVRP
ParentalKPKPGDG
K.KPGDG
RetrocopyKAKPGDG

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_946 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 18 parental genes, and 24 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000195092 retrocopies
retro_btau_1326, retro_btau_1438,
Canis familiaris ENSCAFG000000047942 retrocopies
retro_cfam_435, retro_cfam_612,
Equus caballus ENSECAG000000236581 retrocopy
retro_ecab_647,
Echinops telfairi ENSETEG00000006403 1 retrocopy
retro_etel_946 ,
Felis catus ENSFCAG000000250931 retrocopy
retro_fcat_350,
Homo sapiens ENSG000001656091 retrocopy
retro_hsap_3580,
Gorilla gorilla ENSGGOG000000063251 retrocopy
retro_ggor_2415,
Loxodonta africana ENSLAFG000000120521 retrocopy
retro_lafr_226,
Myotis lucifugus ENSMLUG000000104532 retrocopies
retro_mluc_1263, retro_mluc_2073,
Macaca mulatta ENSMMUG000000171411 retrocopy
retro_mmul_1828,
Nomascus leucogenys ENSNLEG000000122981 retrocopy
retro_nleu_2838,
Oryctolagus cuniculus ENSOCUG000000093081 retrocopy
retro_ocun_862,
Otolemur garnettii ENSOGAG000000058162 retrocopies
retro_ogar_2071, retro_ogar_2988,
Pongo abelii ENSPPYG000000020912 retrocopies
retro_pabe_2949, retro_pabe_3040,
Pan troglodytes ENSPTRG000000022941 retrocopy
retro_ptro_2427,
Rattus norvegicus ENSRNOG000000177411 retrocopy
retro_rnor_1672,
Sus scrofa ENSSSCG000000111131 retrocopy
retro_sscr_143,
Tursiops truncatus ENSTTRG000000073942 retrocopies
retro_ttru_209, retro_ttru_495,


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