RetrogeneDB - Retrocopy retro_ttru

	RetrogeneDB ID:	retro_ttru_223
Retrocopy location	Organism:	*Dolphin (Tursiops truncatus)*
	Coordinates:	GeneScaffold_1597:267529..267754(+)
	Located in intron of:	None
Retrocopy information	Ensembl ID:	None
	Aliases:	None
	Status:	NOVEL
Parental gene information	Parental gene summary:
	Parental gene symbol:	POLR2I
	Ensembl ID:	ENSTTRG00000003919
	Aliases:	None
	Description:	polymerase (RNA) II (DNA directed) polypeptide I, 14.5kDa [Source:HGNC Symbol;Acc:9196]

Retrocopy-Parental alignment summary:

						
>retro_ttru_223
GAAGAAAAACAGGGCATCATCTACGTCAGCAAAATAACACAACTGACCCAGAACATCACTGACGTGTCCCAGGACCAGAT

GCTGCCTGGAACCGAGCACTACCGCTGCCAAAAGTGCGGCCACAAGGAGGCAGTGTTCTTCCAGTCACACAGAACCAGGG

CTGAGGACGCCATGAACCGGCACTACCTGTGCAGGGCCCCACACTTTGGCCACCACTGGAGTGAG

ORF - retro_ttru_223 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

Percent Identity:	63.29 %
Parental protein coverage:	63.2 %
Number of stop codons detected:	0
Number of frameshifts detected	0

Retrocopy - Parental Gene Alignment:

									ParentalEADNSCIYVNKITHEVDELTQIIADVSQDPTLPRTEDHPCQKCGHKEAVFFQSHSARAEDAMRLYYVCTA
		E.....IYV.KIT.....LTQ.I.DVSQD..LP.TE...CQKCGHKEAVFFQSH..RAEDAM...Y.C.A
RetrocopyEEKQGIIYVSKIT----QLTQNITDVSQDQMLPGTEHYRCQKCGHKEAVFFQSHRTRAEDAMNRHYLCRA
ParentalPHCGHRWTE
		PH.GH.W.E
RetrocopyPHFGHHWSE

							

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

						

RNA-Seq - click to see more details

Tursiops truncatus was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Tursiops truncatus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_ttru_223 retrocopy.

TSS - click to see more details

Tursiops truncatus was not studied using FANTOM5 data.

Lab - click to see more details

retro_ttru_223 was not experimentally validated.

Retrocopy orthology:

Tursiops truncatus 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 9 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000006601	1 retrocopy	retro_cfam_1400,
Callithrix jacchus	ENSCJAG00000009671	1 retrocopy	retro_cjac_2777,
Dipodomys ordii	ENSDORG00000001852	2 retrocopies	retro_dord_264, retro_dord_555,
Monodelphis domestica	ENSMODG00000014172	1 retrocopy	retro_mdom_1465,
Mus musculus	ENSMUSG00000019738	1 retrocopy	retro_mmus_2287,
Oryctolagus cuniculus	ENSOCUG00000013044	2 retrocopies	retro_ocun_103, retro_ocun_1603,
Otolemur garnettii	ENSOGAG00000024254	1 retrocopy	retro_ogar_386,
Ochotona princeps	ENSOPRG00000001789	2 retrocopies	retro_opri_350, retro_opri_837,
Tursiops truncatus	ENSTTRG00000003919	1 retrocopy	retro_ttru_223 ,

Parental	EADNSCIYVNKITHEVDELTQIIADVSQDPTLPRTEDHPCQKCGHKEAVFFQSHSARAEDAMRLYYVCTA
	E.....IYV.KIT.....LTQ.I.DVSQD..LP.TE...CQKCGHKEAVFFQSH..RAEDAM...Y.C.A
Retrocopy	EEKQGIIYVSKIT----QLTQNITDVSQDQMLPGTEHYRCQKCGHKEAVFFQSHRTRAEDAMNRHYLCRA

Parental	PHCGHRWTE
	PH.GH.W.E
Retrocopy	PHFGHHWSE

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

RetrogeneDB ID:

retro_ttru_223