RetrogeneDB ID:

retro_etel_663

Retrocopy
location
Organism:Lesser hedgehog tenrec (Echinops telfairi)
Coordinates:scaffold_136393:542..814(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:BTF3L4
Ensembl ID:ENSETEG00000011923
Aliases:None
Description:basic transcription factor 3-like 4 [Source:HGNC Symbol;Acc:30547]


Retrocopy-Parental alignment summary:






>retro_etel_663
CATTTCAACTATCCCAAGGTACAAGCTCCCCTCTCTGCTAACACATGTGTTATTACTGGTCATGCAAAAGGCCAAGCTAT
CCACAGAAATGAGTTCCTAAAATATTAAGTCAGGTTGTTGCTGACAGCTTCACAAGTCTTAGGAAATGATCTGAACAGTT
CCCAAGGCAAGTGTTGGATAGCAAAACCCCAAAGACAGAAGACATTGATGAGGAAGATAATGATGTTCCAGATCTCATAG
AAAATGTTGATGGGGCATCGAAAAATGAAGCA

ORF - retro_etel_663 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 71.74 %
Parental protein coverage: 56.96 %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalHFNNPKVQASLSANTFAITGHAEAKPI-TEM-LPGILSQLGADSLTSLRKLAEQFPRQVLDNETPKPEDI
HFN.PKVQA.LSANT..ITGHA....I.TEM..P.ILSQ..ADS.TSLRK..EQFPRQVLD..TPK.EDI
RetrocopyHFNYPKVQAPLSANTCVITGHAKGQAI>TEM>VPKILSQVVADSFTSLRK*SEQFPRQVLDSKTPKTEDI
ParentalDEEDDDVXXLVENFDEASKNEA
DEED.DV..L.EN.D.ASKNEA
RetrocopyDEEDNDVPDLIENVDGASKNEA

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_663 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 30 parental genes, and 123 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000110251 retrocopy
Canis familiaris ENSCAFG000000037822 retrocopies
Callithrix jacchus ENSCJAG000000215824 retrocopies
Cavia porcellus ENSCPOG000000040061 retrocopy
Ciona savignyi ENSCSAVG000000096531 retrocopy
Dasypus novemcinctus ENSDNOG000000031814 retrocopies
Erinaceus europaeus ENSEEUG000000045023 retrocopies
Echinops telfairi ENSETEG00000011923 11 retrocopies
Echinops telfairi ENSETEG000000173415 retrocopies
Homo sapiens ENSG000001347173 retrocopies
Loxodonta africana ENSLAFG000000161243 retrocopies
Macropus eugenii ENSMEUG0000000613510 retrocopies
Microcebus murinus ENSMICG000000028071 retrocopy
Myotis lucifugus ENSMLUG000000168841 retrocopy
Macaca mulatta ENSMMUG000000036361 retrocopy
Monodelphis domestica ENSMODG000000007702 retrocopies
Mustela putorius furoENSMPUG000000069662 retrocopies
Mus musculus ENSMUSG000000285682 retrocopies
Nomascus leucogenys ENSNLEG000000160412 retrocopies
Oryctolagus cuniculus ENSOCUG000000015173 retrocopies
Otolemur garnettii ENSOGAG000000302562 retrocopies
Ochotona princeps ENSOPRG000000133352 retrocopies
Procavia capensis ENSPCAG000000064283 retrocopies
Pongo abelii ENSPPYG000000013532 retrocopies
Pan troglodytes ENSPTRG000000007353 retrocopies
Rattus norvegicus ENSRNOG000000085128 retrocopies
Sorex araneus ENSSARG000000031732 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000061296 retrocopies
Tupaia belangeri ENSTBEG0000001330730 retrocopies
Tarsius syrichta ENSTSYG000000136353 retrocopies



Copyright © RetrogeneDB 2014-2017