RetrogeneDB - Retrocopy retro_shar

                        
>retro_shar_666
TGTGGTAAGTCTGGTCATCTTGCCAAGGATTGTAATCTTCAGAAGGATGCTTGCTATAACTGCGGTAGAGATGGCTACTT

TGCCAAGCACTGCAGGGAACCCAAGCAAGAAAGAGAGTAGTGTTGCTACAATGTAGCAAAGTTGGTCATTTGGCTCATGA

CTGTGACCATGCAGATAAAGTACAAGTGTTATTCATGTGGAAAGTTTGGGCACATTCAGAAAGATTGCACCAAAGTGAAA

TGCTGTATGTGTGGTGAAACTAGTCATGTAACCATCAACTGCAGCAAGATGAGT

ORF - retro_shar_666 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

Percent Identity:	77.0 %
Parental protein coverage:	55.37 %
Number of stop codons detected:	1
Number of frameshifts detected:	2

Retrocopy - Parental Gene Alignment:

                                ParentalCGESGHLAKDCDLQEDACYNCGRGGHIAKDCKEPKREREQCCYN-CGKPGHLARDCDHAD-EQKCYSCGE
CG.SGHLAKDC.LQ.DACYNCGR.G..AK.C.EPK.ERE.CCYN.C.K.GHLA.DCDHAD...KCYSCG.
RetrocopyCGKSGHLAKDCNLQKDACYNCGRDGYFAKHCREPKQERE*CCYN<CSKVGHLAHDCDHAD>KYKCYSCGK
ParentalFGHIQKDCTKVKCYRCGETGHVAINCSKTS
FGHIQKDCTKVKC..CGET.HV.INCSK.S
RetrocopyFGHIQKDCTKVKCCMCGETSHVTINCSKMS

                            

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

                        

RNA-Seq - click to see more details

Sarcophilus harrisii was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Sarcophilus harrisii was not studied using ChIP-Seq data.

EST - click to see more details

Sarcophilus harrisii was not studied using EST data.

TSS - click to see more details

Sarcophilus harrisii was not studied using FANTOM5 data.

Lab - click to see more details

retro_shar_666 was not experimentally validated.

Retrocopy orthology:

Sarcophilus harrisii 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 11 parental genes, and 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000012159	1 retrocopy	retro_btau_19,
Callithrix jacchus	ENSCJAG00000017430	1 retrocopy	retro_cjac_4079,
Equus caballus	ENSECAG00000009512	1 retrocopy	retro_ecab_1072,
Echinops telfairi	ENSETEG00000008408	5 retrocopies	retro_etel_12, retro_etel_1791, retro_etel_2192, retro_etel_237, retro_etel_583,
Felis catus	ENSFCAG00000028042	2 retrocopies	retro_fcat_1922, retro_fcat_2001,
Loxodonta africana	ENSLAFG00000002502	1 retrocopy	retro_lafr_49,
Oryctolagus cuniculus	ENSOCUG00000008696	2 retrocopies	retro_ocun_1626, retro_ocun_208,
Otolemur garnettii	ENSOGAG00000013898	1 retrocopy	retro_ogar_144,
Pteropus vampyrus	ENSPVAG00000015070	1 retrocopy	retro_pvam_908,
Sorex araneus	ENSSARG00000011874	1 retrocopy	retro_sara_397,
Sarcophilus harrisii	ENSSHAG00000017132	1 retrocopy	retro_shar_666 ,

	RetrogeneDB ID:	retro_shar_666
Retrocopy location	Organism:	*Tasmanian devil (Sarcophilus harrisii)*
	Coordinates:	GL856972.1:62874..63168(-)
	Located in intron of:	None
Retrocopy information	Ensembl ID:	None
	Aliases:	None
	Status:	NOVEL
Parental gene information	Parental gene summary:
	Parental gene symbol:	CNBP
	Ensembl ID:	ENSSHAG00000017132
	Aliases:	None
	Description:	CCHC-type zinc finger, nucleic acid binding protein [Source:HGNC Symbol;Acc:13164]

Parental	CGESGHLAKDCDLQEDACYNCGRGGHIAKDCKEPKREREQCCYN-CGKPGHLARDCDHAD-EQKCYSCGE
	CG.SGHLAKDC.LQ.DACYNCGR.G..AK.C.EPK.ERE.CCYN.C.K.GHLA.DCDHAD...KCYSCG.
Retrocopy	CGKSGHLAKDCNLQKDACYNCGRDGYFAKHCREPKQERE*CCYN<CSKVGHLAHDCDHAD>KYKCYSCGK

Parental	FGHIQKDCTKVKCYRCGETGHVAINCSKTS
	FGHIQKDCTKVKC..CGET.HV.INCSK.S
Retrocopy	FGHIQKDCTKVKCCMCGETSHVTINCSKMS

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

RetrogeneDB ID:

retro_shar_666