RetrogeneDB - Retrocopy retro_ogar

						
>retro_ogar_134
ATGGGGTTTGTTAAGGTTGTCAAGATTAAGGCCTACTTTAAGAGACACCAAGAGAAATTTAGAAGACAAAGAGAGGGTAA

AACTGATTACTATGCTCAGAAACGCTTGGTAATACAGAATAAAAATAAGTACAGCACACCCAAATACAGAATGATAGTTT

GGGTGACTAACAGAGACATCATTTGTCAGACTGCTTATGCCCGTATAGAAGGAGACATGATAGTCTGCGCAGCTTATGCA

CATGAACTACCAAAACACGGTGTGAAGGTTGGCCTGACAAATTATGCTGCAGCATACTGTACTGGCCTGCTGCTGGCCCG

CAGGCTTCTCAATAGGTTTGGCATGGACAAGATCTATGAAGGCCAAGTGGAGGTGGCTGGCAATGAATACAATGTGGAAA

GCATCGATGGTCAGCCTGGTGCTTTTACATGCTATTTGGATGCAGGCCTTGCCAGGACCACCACTGGCAATAAAGTTTTT

GGAGCCCTGAAGGGAGATGTGGATGGAGGCTTGTCTATCCCTCACGGTACCAAACGATTCCCTGGTTATGATTCCGAAAG

CAAGGAATTTAATGCTGAAATACATCAGAAGCATATCATGGGACAGAATGTTGCAGATTATATGTGTTACCTAATGGAAG

AAGATGAAAATGCTTACAAAAAACAGTTCTCTCAATACATAAAGAACAACATCACTCCAGACATGATGGAGGAGATATAT

AAGAAAGCTTATGCAGCTATACGAGATAACCCAGTCTATGAGAAGAAGCCCAAGAGAGAAGTTAAAAAGAAGAGATGGAA

CCGTCCCAAAATGTCCCTTGCCCAGAAGAAAGATCGAGTAGCTCAAAAGAAGGCAAGCTTTCTTAGAGCTCAGGAGCGAG

CTGCTGAAAGCTAA

ORF - retro_ogar_134 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

Percent Identity:	90.2 %
Parental protein coverage:	99.66 %
Number of stop codons detected:	0
Number of frameshifts detected	0

Retrocopy - Parental Gene Alignment:

									ParentalGFVKVVKNKAYFKRYQVKFRRRREGKTDYYARKRLVIQDKNKYNTPKYRMIVRVTNRDIICQIAYARIEG
		GFVKVVK.KAYFKR.Q.KFRR.REGKTDYYA.KRLVIQ.KNKY.TPKYRMIV.VTNRDIICQ.AYARIEG
RetrocopyGFVKVVKIKAYFKRHQEKFRRQREGKTDYYAQKRLVIQNKNKYSTPKYRMIVWVTNRDIICQTAYARIEG
ParentalDMIVCAAYAHELPKYGVKVGLTRNCQAYASGLLLAKMLLNRFGMDKIYEGQVEVTGDEYNVESIDGQPGA
		DMIVCAAYAHELPK.GVKVGLT....AY..GLLLA..LLNRFGMDKIYEGQVEV.G.EYNVESIDGQPGA
RetrocopyDMIVCAAYAHELPKHGVKVGLTNYAAAYCTGLLLARRLLNRFGMDKIYEGQVEVAGNEYNVESIDGQPGA
ParentalFTCYLDAGLARTTTGNKVFGALKGAVDGGLSIPHSTKRFPGYDSESKEFNAEVHRKHIMGQNVADYMRYL
		FTCYLDAGLARTTTGNKVFGALKG.VDGGLSIPH.TKRFPGYDSESKEFNAE.H.KHIMGQNVADYM.YL
RetrocopyFTCYLDAGLARTTTGNKVFGALKGDVDGGLSIPHGTKRFPGYDSESKEFNAEIHQKHIMGQNVADYMCYL
ParentalMEEDEDAYKKQFSQYIKNNVTPDMMEEMYKKAHAAIRDNPVYEKKPKREVKKKRWNRPKMSLAQKKDRVA
		MEEDE.AYKKQFSQYIKNN.TPDMMEE.YKKA.AAIRDNPVYEKKPKREVKKKRWNRPKMSLAQKKDRVA
RetrocopyMEEDENAYKKQFSQYIKNNITPDMMEEIYKKAYAAIRDNPVYEKKPKREVKKKRWNRPKMSLAQKKDRVA
ParentalQKKASFLRAQERAAES
		QKKASFLRAQERAAES
RetrocopyQKKASFLRAQERAAES

							

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

						

RNA-Seq - click to see more details

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Otolemur garnettii was not studied using ChIP-Seq data.

EST - click to see more details

Otolemur garnettii was not studied using EST data.

TSS - click to see more details

Otolemur garnettii was not studied using FANTOM5 data.

Lab - click to see more details

retro_ogar_134 was not experimentally validated.

Retrocopy orthology:

Otolemur garnettii 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 14 parental genes, and 141 retrocopies.

Species	Parental gene accession	Retrocopies number
Erinaceus europaeus	ENSEEUG00000002852	1 retrocopy	retro_eeur_620,
Echinops telfairi	ENSETEG00000009889	8 retrocopies	retro_etel_1044, retro_etel_1089, retro_etel_1103, retro_etel_1264, retro_etel_2028, retro_etel_64, retro_etel_785, retro_etel_814,
Homo sapiens	ENSG00000122406	30 retrocopies	retro_hsap_1266, retro_hsap_138, retro_hsap_1469, retro_hsap_1539, retro_hsap_1588, retro_hsap_1767, retro_hsap_183, retro_hsap_1989, retro_hsap_2143, retro_hsap_2385, retro_hsap_2594, retro_hsap_2600, retro_hsap_2777, retro_hsap_2962, retro_hsap_3105, retro_hsap_3178, retro_hsap_3181, retro_hsap_3209, retro_hsap_3430, retro_hsap_3520, retro_hsap_3941, retro_hsap_4048, retro_hsap_4104, retro_hsap_486, retro_hsap_590, retro_hsap_632, retro_hsap_646, retro_hsap_742, retro_hsap_780, retro_hsap_827,
Gorilla gorilla	ENSGGOG00000002699	24 retrocopies	retro_ggor_1129, retro_ggor_1172, retro_ggor_1206, retro_ggor_1342, retro_ggor_1343, retro_ggor_1656, retro_ggor_1934, retro_ggor_2052, retro_ggor_2130, retro_ggor_2178, retro_ggor_2243, retro_ggor_2318, retro_ggor_233, retro_ggor_2380, retro_ggor_264, retro_ggor_2649, retro_ggor_2715, retro_ggor_2755, retro_ggor_457, retro_ggor_521, retro_ggor_553, retro_ggor_622, retro_ggor_647, retro_ggor_996,
Macropus eugenii	ENSMEUG00000006361	3 retrocopies	retro_meug_1168, retro_meug_1537, retro_meug_2146,
Myotis lucifugus	ENSMLUG00000008956	1 retrocopy	retro_mluc_925,
Monodelphis domestica	ENSMODG00000011635	1 retrocopy	retro_mdom_748,
Nomascus leucogenys	ENSNLEG00000010500	2 retrocopies	retro_nleu_2102, retro_nleu_39,
Ornithorhynchus anatinus	ENSOANG00000004669	1 retrocopy	retro_oana_97,
Otolemur garnettii	ENSOGAG00000013246	6 retrocopies	retro_ogar_1164, retro_ogar_134 , retro_ogar_1627, retro_ogar_2374, retro_ogar_2633, retro_ogar_707,
Petromyzon marinus	ENSPMAG00000002040	1 retrocopy	retro_pmar_23,
Pongo abelii	ENSPPYG00000001152	32 retrocopies	retro_pabe_1053, retro_pabe_1219, retro_pabe_1274, retro_pabe_1307, retro_pabe_1331, retro_pabe_1501, retro_pabe_1918, retro_pabe_1931, retro_pabe_2019, retro_pabe_2123, retro_pabe_2238, retro_pabe_2457, retro_pabe_246, retro_pabe_247, retro_pabe_2640, retro_pabe_2641, retro_pabe_2658, retro_pabe_2813, retro_pabe_2841, retro_pabe_2909, retro_pabe_3247, retro_pabe_3320, retro_pabe_3360, retro_pabe_3534, retro_pabe_446, retro_pabe_447, retro_pabe_480, retro_pabe_51, retro_pabe_562, retro_pabe_572, retro_pabe_637, retro_pabe_740,
Pan troglodytes	ENSPTRG00000000963	30 retrocopies	retro_ptro_1038, retro_ptro_1068, retro_ptro_1184, retro_ptro_1326, retro_ptro_139, retro_ptro_1519, retro_ptro_1524, retro_ptro_1568, retro_ptro_169, retro_ptro_1744, retro_ptro_1878, retro_ptro_2005, retro_ptro_2241, retro_ptro_2262, retro_ptro_2264, retro_ptro_2329, retro_ptro_2391, retro_ptro_2674, retro_ptro_2742, retro_ptro_2785, retro_ptro_2941, retro_ptro_3027, retro_ptro_366, retro_ptro_433, retro_ptro_460, retro_ptro_470, retro_ptro_528, retro_ptro_577, retro_ptro_866, retro_ptro_997,
Sarcophilus harrisii	ENSSHAG00000006417	1 retrocopy	retro_shar_202,

	RetrogeneDB ID:	retro_ogar_134
Retrocopy location	Organism:	*Bushbaby (Otolemur garnettii)*
	Coordinates:	GL873751.1:338115..339009(+)
	Located in intron of:	None
Retrocopy information	Ensembl ID:	ENSOGAG00000024625
	Aliases:	None
	Status:	KNOWN_PROTEIN_CODING
Parental gene information	Parental gene summary:
	Parental gene symbol:	RPL5
	Ensembl ID:	ENSOGAG00000013246
	Aliases:	None
	Description:	ribosomal protein L5 [Source:HGNC Symbol;Acc:10360]

Parental	GFVKVVKNKAYFKRYQVKFRRRREGKTDYYARKRLVIQDKNKYNTPKYRMIVRVTNRDIICQIAYARIEG
	GFVKVVK.KAYFKR.Q.KFRR.REGKTDYYA.KRLVIQ.KNKY.TPKYRMIV.VTNRDIICQ.AYARIEG
Retrocopy	GFVKVVKIKAYFKRHQEKFRRQREGKTDYYAQKRLVIQNKNKYSTPKYRMIVWVTNRDIICQTAYARIEG

Parental	DMIVCAAYAHELPKYGVKVGLTRNCQAYASGLLLAKMLLNRFGMDKIYEGQVEVTGDEYNVESIDGQPGA
	DMIVCAAYAHELPK.GVKVGLT....AY..GLLLA..LLNRFGMDKIYEGQVEV.G.EYNVESIDGQPGA
Retrocopy	DMIVCAAYAHELPKHGVKVGLTNYAAAYCTGLLLARRLLNRFGMDKIYEGQVEVAGNEYNVESIDGQPGA

Parental	FTCYLDAGLARTTTGNKVFGALKGAVDGGLSIPHSTKRFPGYDSESKEFNAEVHRKHIMGQNVADYMRYL
	FTCYLDAGLARTTTGNKVFGALKG.VDGGLSIPH.TKRFPGYDSESKEFNAE.H.KHIMGQNVADYM.YL
Retrocopy	FTCYLDAGLARTTTGNKVFGALKGDVDGGLSIPHGTKRFPGYDSESKEFNAEIHQKHIMGQNVADYMCYL

Parental	MEEDEDAYKKQFSQYIKNNVTPDMMEEMYKKAHAAIRDNPVYEKKPKREVKKKRWNRPKMSLAQKKDRVA
	MEEDE.AYKKQFSQYIKNN.TPDMMEE.YKKA.AAIRDNPVYEKKPKREVKKKRWNRPKMSLAQKKDRVA
Retrocopy	MEEDENAYKKQFSQYIKNNITPDMMEEIYKKAYAAIRDNPVYEKKPKREVKKKRWNRPKMSLAQKKDRVA

Parental	QKKASFLRAQERAAES
	QKKASFLRAQERAAES
Retrocopy	QKKASFLRAQERAAES

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

RetrogeneDB ID:

retro_ogar_134