RetrogeneDB ID:

retro_etel_1992

Retrocopy
location
Organism:Lesser hedgehog tenrec (Echinops telfairi)
Coordinates:scaffold_322359:550..973(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RWDD1
Ensembl ID:ENSETEG00000019085
Aliases:None
Description:RWD domain containing 1 [Source:HGNC Symbol;Acc:20993]


Retrocopy-Parental alignment summary:






>retro_etel_1992
TATATAGTATTCACAGAAAATCCACCCACTTTCACCATCACTGTGACATCTGAGGCTGGGAAAACAACTCCCTGGTGCAG
ACTGCACTCAAGTTTACAGACAGCAAAATTATCCAGATGATGCGCCCCTTTATGAAATAGCCCCCCAGGAAAGTCCAGCA
GATAATGATGTTTCAGACATTTAAAAATTATCACAATTACACGCAGAAGAAAAGCTTAGCCTGGGAATGAACTCTACTTT
TGTATCGACTGTGCAAGGAAAATGAAATGAAATAGTGGATCAAATAAGAGCCAGAAGAGAGGAAGACGAGAAAAGGAAGC
AGAGGAAGCTGAGCAGCAGCTTTTTCATGACACTCCTGTTACAAGGGAGACGCCCAGACTTTGGGAGACCAAATCTGGTG
AGGAACTCTTGGACATGAAAAAG

ORF - retro_etel_1992 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 58.11 %
Parental protein coverage: 60.17 %
Number of stop codons detected: 2
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalFTVLSERPSSFTITVTSEAG-ENNKTVQTTLKFTYS-EKYPDDAPLYEIFSQENLAENDVADILKLLALQ
..V..E.P..FTITVTSEAG.ENN..VQT.LKFT.S...YPDDAPLYEI..QE..A.NDV.DI.KL..L.
RetrocopyYIVFTENPPTFTITVTSEAG<ENNSLVQTALKFTDS<QNYPDDAPLYEIAPQESPADNDVSDI*KLSQLH
ParentalAEENLGMVMIFTLVSAVQEKLNEIVDQIKSRREEEKKQKEK-EAEEAEKQLFHGTPVTIENFLSWKAKFD
AEE.L...M..T.VS.VQ.K.NEIVDQI..RREE..K.K...EAE....QLFH.TPVT.E....W..K..
RetrocopyAEEKLSLGMNSTFVSTVQGK*NEIVDQIRARREEDEKRKQR<EAEQ---QLFHDTPVTRETPRLWETKSG
ParentalAELSEKKR
.EL...K.
RetrocopyEELLDMKK

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Echinops telfairi was not studied using RNA-Seq expression data.
Echinops telfairi was not studied using ChIP-Seq data.
Echinops telfairi was not studied using EST data.
Echinops telfairi was not studied using FANTOM5 data.
retro_etel_1992 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 12 parental genes, and 17 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000056921 retrocopy
Bos taurus ENSBTAG000000096891 retrocopy
Callithrix jacchus ENSCJAG000000044741 retrocopy
Equus caballus ENSECAG000000065872 retrocopies
Echinops telfairi ENSETEG00000019085 3 retrocopies
retro_etel_140, retro_etel_1992 , retro_etel_423,
Loxodonta africana ENSLAFG000000081701 retrocopy
Monodelphis domestica ENSMODG000000178371 retrocopy
Oryctolagus cuniculus ENSOCUG000000135921 retrocopy
Procavia capensis ENSPCAG000000050161 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000202312 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000221241 retrocopy
Tupaia belangeri ENSTBEG000000025432 retrocopies



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