RetrogeneDB - Retrocopy retro_ttru

                        
>retro_ttru_87
ACAGGAGTGGAGGCTGGAGAGAGTGCTTGCAAACTTACTCGGAGATGGGGATATACTACTGAGAAGGGTATCCCAAAGAT

TGTTTTTTGCAGCCGGAAACTTTTGGAGGTAGAACATTGTCAGCAATCTCCAGTTCCACACACCCAACCAGTTACAATGG

TTTTGGACCATTTATGTCAGGTTTTGAAATCACTCCATATAATGATCTGCCTGTCTTGAGCGTGCACTTCAGGATCCAAA

TGTTGTGGCGTTCATGGTGGAACCAACTCAGGGTGAAGCAGGCGTTGTTGTTCTGGATCCAGGCTACTTGTGGGTGTGCA

AGAGCTCTAAACCCAGCACCAGGCTCTGTTTATTGCTGATGAAATACAGACAGGATTGGCCAGAACTGGTAGATGGCTGG

CTATTGATCACGAAAATGTCAGACCTGATACAGTTCTTCTAGGAAAGGCACTTTCTGGTGGTTTATACCCTGTATCCACA

GTGTTGTATAATGATGAAATAATGTTGACCATTAAACCAGGGGAACATGGTTCTATGTACGGTGGCAATCCACTAGGCTG

CCGAGTGTCCATCACAGCCCTTGAGGTTTTGGAAGAAGAAAACCTTGCTGAAAAATGCAGACAAATGGGTATCATCTTGA

GAAATGAACGCATGAAGCTACCTTCTGATATTGTAACTGCTGTAAGAGGAAAAGGATTATTAAATGCTATTGTTATTAGA

GAAACCAAAGACTGTGATGCTTGGAAGGTATGTCTGTGACTTCGAGATAATGGACTTCTGGACAAGCCAACCCATGGTGA

TATCATCAGGTTTGCACCTCCGCTTGTGATCAAGGAGGAGGAGATTCTGGAGGCCATGGACATCATTAACAAGAACATCT

TG

ORF - retro_ttru_87 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

Percent Identity:	82.78 %
Parental protein coverage:	67.51 %
Number of stop codons detected:	2
Number of frameshifts detected:	4

Retrocopy - Parental Gene Alignment:

                                ParentalTGVEAGETACKLARRWGYTV-KGIPKYKAKIVF-AAGNFW-GRTLSAISSSTDPTSYDGFGPFMPGFEII
TGVEAGE.ACKL.RRWGYT..KGIPK....IVF.AAGNFW.GRTLSAISSST.PTSY.GFGPFM.GFEI.
RetrocopyTGVEAGESACKLTRRWGYTTEKGIPK----IVF>AAGNFW>GRTLSAISSSTHPTSYNGFGPFMSGFEIT
ParentalPYNDLP-ALERALQDPNVAAFMVEPIQGEAGVVVPDPGY-LVGVRELCTQHQVLFIADEVQTGLARTGRW
PYNDLP..LERALQDPNV.AFMVEP.QGEAGVVV.DPGY.LVGV.EL.TQHQ.LFIADE.QTGLARTGRW
RetrocopyPYNDLP<CLERALQDPNVVAFMVEPTQGEAGVVVLDPGY<LVGVQEL*TQHQALFIADEIQTGLARTGRW
ParentalLAVDHENVRPDMVLLGKALSGGLYPVSAVLCDDEIMLTIKSGEHGFTYGG-PL-CRA--IAAGVLEEENL
LA.DHENVRPD.VLLGKALSGGLYPVS.VL..DEIMLTIK.GEHG..YGG.PL.CR....A..VLEEENL
RetrocopyLAIDHENVRPDTVLLGKALSGGLYPVSTVLYNDEIMLTIKPGEHGSMYGGNPLGCRVSITALEVLEEENL
ParentalAENAEKMGIILRNELMKLPSDIVTAVRGKGLLNAIVIRETKDYDAWKVCLRLRDNGLLAKPTHGDIIRFA
AE....MGIILRNE.MKLPSDIVTAVRGKGLLNAIVIRETKD.DAWKVCL.LRDNGLL.KPTHGDIIRFA
RetrocopyAEKCRQMGIILRNERMKLPSDIVTAVRGKGLLNAIVIRETKDCDAWKVCL*LRDNGLLDKPTHGDIIRFA
ParentalPPLVIKEDEILEAVEIINKTIL
PPLVIKE.EILEA..IINK.IL
RetrocopyPPLVIKEEEILEAMDIINKNIL

                            

                            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_87 retrocopy.

TSS - click to see more details

Tursiops truncatus was not studied using FANTOM5 data.

Lab - click to see more details

retro_ttru_87 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 10 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000012633	1 retrocopy	retro_cjac_2462,
Homo sapiens	ENSG00000065154	1 retrocopy	retro_hsap_4828,
Gorilla gorilla	ENSGGOG00000000848	1 retrocopy	retro_ggor_3010,
Macropus eugenii	ENSMEUG00000005655	1 retrocopy	retro_meug_613,
Mus musculus	ENSMUSG00000030934	1 retrocopy	retro_mmus_3475,
Nomascus leucogenys	ENSNLEG00000000482	2 retrocopies	retro_nleu_2176, retro_nleu_503,
Pongo abelii	ENSPPYG00000002737	2 retrocopies	retro_pabe_2989, retro_pabe_3754,
Pan troglodytes	ENSPTRG00000003028	1 retrocopy	retro_ptro_3213,
Sus scrofa	ENSSSCG00000010734	1 retrocopy	retro_sscr_1181,
Tursiops truncatus	ENSTTRG00000004225	1 retrocopy	retro_ttru_87 ,

	RetrogeneDB ID:	retro_ttru_87
Retrocopy location	Organism:	*Dolphin (Tursiops truncatus)*
	Coordinates:	GeneScaffold_1184:37088..37970(+)
	Located in intron of:	ENSTTRG00000010792
Retrocopy information	Ensembl ID:	None
	Aliases:	None
	Status:	NOVEL
Parental gene information	Parental gene summary:
	Parental gene symbol:	OAT
	Ensembl ID:	ENSTTRG00000004225
	Aliases:	None
	Description:	ornithine aminotransferase [Source:HGNC Symbol;Acc:8091]

Parental	TGVEAGETACKLARRWGYTV-KGIPKYKAKIVF-AAGNFW-GRTLSAISSSTDPTSYDGFGPFMPGFEII
	TGVEAGE.ACKL.RRWGYT..KGIPK....IVF.AAGNFW.GRTLSAISSST.PTSY.GFGPFM.GFEI.
Retrocopy	TGVEAGESACKLTRRWGYTTEKGIPK----IVF>AAGNFW>GRTLSAISSSTHPTSYNGFGPFMSGFEIT

Parental	PYNDLP-ALERALQDPNVAAFMVEPIQGEAGVVVPDPGY-LVGVRELCTQHQVLFIADEVQTGLARTGRW
	PYNDLP..LERALQDPNV.AFMVEP.QGEAGVVV.DPGY.LVGV.EL.TQHQ.LFIADE.QTGLARTGRW
Retrocopy	PYNDLP<CLERALQDPNVVAFMVEPTQGEAGVVVLDPGY<LVGVQEL*TQHQALFIADEIQTGLARTGRW

Parental	LAVDHENVRPDMVLLGKALSGGLYPVSAVLCDDEIMLTIKSGEHGFTYGG-PL-CRA--IAAGVLEEENL
	LA.DHENVRPD.VLLGKALSGGLYPVS.VL..DEIMLTIK.GEHG..YGG.PL.CR....A..VLEEENL
Retrocopy	LAIDHENVRPDTVLLGKALSGGLYPVSTVLYNDEIMLTIKPGEHGSMYGGNPLGCRVSITALEVLEEENL

Parental	AENAEKMGIILRNELMKLPSDIVTAVRGKGLLNAIVIRETKDYDAWKVCLRLRDNGLLAKPTHGDIIRFA
	AE....MGIILRNE.MKLPSDIVTAVRGKGLLNAIVIRETKD.DAWKVCL.LRDNGLL.KPTHGDIIRFA
Retrocopy	AEKCRQMGIILRNERMKLPSDIVTAVRGKGLLNAIVIRETKDCDAWKVCL*LRDNGLLDKPTHGDIIRFA

Parental	PPLVIKEDEILEAVEIINKTIL
	PPLVIKE.EILEA..IINK.IL
Retrocopy	PPLVIKEEEILEAMDIINKNIL

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

RetrogeneDB ID:

retro_ttru_87