RetrogeneDB ID:

retro_rnor_1777

Retrocopy
location
Organism:Rat (Rattus norvegicus)
Coordinates:3:14146587..14147351(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSRNOG00000030638
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_rnor_1777
GATCCTGCTAACATCAAATGGGGTGACGCTGGTGCTGAGTATGTCGTGGAGTCTGCTAGTGTCTTCACCACCATGGAGAA
GGATGGGGCTCACCTGAAGGGTGGGGCCAAAAGGATCATCATCTCTGTCCCTTCAGCCGATGCCCCCATGTTTGTGATGG
GTGTGAACCACGAGAAATATGACAACTCCCTCAAAATTGTCAGCAATGCATCCTGTACCACCAACTGCTTACCACCACCA
CCACCCCGGCCAAAGTCATCCATGACAACTTTGGCATCATGGAAGGGCTCATGACCACAGTCCATGCCATCACTGCCACT
CAGAAGACTGTGGATGGCCCCTCTGGAAAGCTGTGGCGTGATGGCCCTGGGGCAGCCCAGAACATCATCCCTGCATCCAC
TGGTGCTGCCAAGGCTGTGGGCAAGGTCATCCCAGAGCTGAACGGGAAGCTCACTGGCATGGCCTTCCGTGTTCCTACCC
CCAATGTATCCGTTGTGGATCTGACATGCCGCCTGGAGACACCCGCCAAGTATGATGACATCAAGAAGGTAGTGAAGCAG
GCGTCTGAGGGCCCACCAAAGGGCATCCTGGGCTACACTGAGGACCAGGTTGTCTCCTGTGACTTCAACAGCAGCTCTCA
CTCTTCACCTTTGATGCTGGGGCTGGCATTGCTCTCAATGACAACTTTGTAAAATTCATTTCCTAGTATGACAATGAATA
CGGCTACAGCAACAGAGTGGTAAACCTCATGGCCTACATGGCCT

ORF - retro_rnor_1777 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 83.46 %
Parental protein coverage: 98.84 %
Number of stop codons detected: 1
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalDPANIKWGDAGAEYDVESTGVFTTMEKAGAHLKGGAKRVIISAPSTDVPMFVMGVNHEKYDNSLKIVSNA
DPANIKWGDAGAEY.VES..VFTTMEK.GAHLKGGAKR.IIS.PS.D.PMFVMGVNHEKYDNSLKIVSNA
RetrocopyDPANIKWGDAGAEYVVESASVFTTMEKDGAHLKGGAKRIIISVPSADAPMFVMGVNHEKYDNSLKIVSNA
ParentalSCTTNCLASQPPPP-PAKVIHDNFGIMEGLMTTVHAVTTTQKTVDGPSGKLWCDGHGAGHNIIPASTGAA
SCTTNCL...PPPP.PAKVIHDNFGIMEGLMTTVHA.T.TQKTVDGPSGKLW.DG.GA..NIIPASTGAA
RetrocopySCTTNCLP--PPPP<PAKVIHDNFGIMEGLMTTVHAITATQKTVDGPSGKLWRDGPGAAQNIIPASTGAA
ParentalKAVGKVIPELNGKLTGMAFCVPIPIVSAVDLTCSLEKPAKNDDIKKVVKQASEGPLKGILGYTEDQVVSC
KAVGKVIPELNGKLTGMAF.VP.P.VS.VDLTC.LE.PAK.DDIKKVVKQASEGP.KGILGYTEDQVVSC
RetrocopyKAVGKVIPELNGKLTGMAFRVPTPNVSVVDLTCRLETPAKYDDIKKVVKQASEGPPKGILGYTEDQVVSC
ParentalDFNSNSHSS-TFDAGAGIALNDNFVKLISWY--EFKFTNQQVPQLSY-WP
DFNS.SHSS.TFDAGAGIALNDNFVK.IS.Y..E....N..V....Y.WP
RetrocopyDFNSSSHSS<TFDAGAGIALNDNFVKFIS*YDNEYGYSNRVVNLMAY>WP

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






(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP017611_brain 0 .29 RPM 0 .00 RPM
SRP017611_kidney 0 .21 RPM 0 .00 RPM
SRP017611_liver 0 .13 RPM 0 .07 RPM
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_1777 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_1777 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_rnor_1777 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 34 parental genes, and 769 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000066755 retrocopies
Ailuropoda melanoleuca ENSAMEG0000001432935 retrocopies
Bos taurus ENSBTAG000000147314 retrocopies
Canis familiaris ENSCAFG000000150774 retrocopies
Callithrix jacchus ENSCJAG000000082341 retrocopy
Cavia porcellus ENSCPOG000000263501 retrocopy
Equus caballus ENSECAG0000002205111 retrocopies
Erinaceus europaeus ENSEEUG000000114443 retrocopies
Echinops telfairi ENSETEG00000013749118 retrocopies
retro_etel_1011, retro_etel_1037, retro_etel_1070, retro_etel_1117, retro_etel_1132, retro_etel_1153, retro_etel_1171, retro_etel_1183, retro_etel_1214, retro_etel_1215, retro_etel_1247, retro_etel_1249, retro_etel_1255, retro_etel_1257, retro_etel_1258, retro_etel_1266, retro_etel_127, retro_etel_1320, retro_etel_1349, retro_etel_1352, retro_etel_1381, retro_etel_1386, retro_etel_1389, retro_etel_1408, retro_etel_1419, retro_etel_1422, retro_etel_1431, retro_etel_1437, retro_etel_1470, retro_etel_1473, retro_etel_1490, retro_etel_150, retro_etel_1511, retro_etel_1538, retro_etel_1550, retro_etel_1563, retro_etel_1570, retro_etel_1588, retro_etel_1601, retro_etel_1608, retro_etel_1620, retro_etel_163, retro_etel_1635, retro_etel_1641, retro_etel_1674, retro_etel_1679, retro_etel_1702, retro_etel_1738, retro_etel_1746, retro_etel_1759, retro_etel_1769, retro_etel_1776, retro_etel_1780, retro_etel_180, retro_etel_184, retro_etel_1840, retro_etel_1869, retro_etel_1895, retro_etel_1897, retro_etel_1949, retro_etel_1970, retro_etel_1976, retro_etel_1982, retro_etel_1989, retro_etel_2033, retro_etel_2076, retro_etel_209, retro_etel_212, retro_etel_213, retro_etel_2152, retro_etel_2161, retro_etel_2173, retro_etel_2198, retro_etel_2202, retro_etel_2210, retro_etel_243, retro_etel_290, retro_etel_330, retro_etel_339, retro_etel_340, retro_etel_365, retro_etel_397, retro_etel_432, retro_etel_440, retro_etel_463, retro_etel_489, retro_etel_495, retro_etel_504, retro_etel_536, retro_etel_557, retro_etel_586, retro_etel_589, retro_etel_600, retro_etel_611, retro_etel_618, retro_etel_621, retro_etel_624, retro_etel_649, retro_etel_653, retro_etel_69, retro_etel_770, retro_etel_780, retro_etel_790, retro_etel_792, retro_etel_798, retro_etel_802, retro_etel_810, retro_etel_874, retro_etel_895, retro_etel_899, retro_etel_90, retro_etel_906, retro_etel_931, retro_etel_934, retro_etel_935, retro_etel_968, retro_etel_969, retro_etel_987,
Felis catus ENSFCAG0000000687417 retrocopies
Homo sapiens ENSG0000011164042 retrocopies
Gorilla gorilla ENSGGOG0000000955330 retrocopies
Loxodonta africana ENSLAFG000000027803 retrocopies
Macropus eugenii ENSMEUG0000001527367 retrocopies
Microcebus murinus ENSMICG0000000654616 retrocopies
Myotis lucifugus ENSMLUG0000001432018 retrocopies
Macaca mulatta ENSMMUG0000001867933 retrocopies
Monodelphis domestica ENSMODG0000001806641 retrocopies
Mustela putorius furoENSMPUG0000001689128 retrocopies
Mus musculus ENSMUSG00000057666109 retrocopies
retro_mmus_1029, retro_mmus_1082, retro_mmus_1136, retro_mmus_1193, retro_mmus_1249, retro_mmus_1319, retro_mmus_1328, retro_mmus_136, retro_mmus_1365, retro_mmus_1371, retro_mmus_1467, retro_mmus_1474, retro_mmus_1480, retro_mmus_1615, retro_mmus_1692, retro_mmus_1721, retro_mmus_1728, retro_mmus_1886, retro_mmus_1922, retro_mmus_1957, retro_mmus_1983, retro_mmus_1985, retro_mmus_2009, retro_mmus_2020, retro_mmus_2030, retro_mmus_2100, retro_mmus_211, retro_mmus_2119, retro_mmus_2122, retro_mmus_2148, retro_mmus_2158, retro_mmus_2175, retro_mmus_2206, retro_mmus_2216, retro_mmus_2248, retro_mmus_2298, retro_mmus_2370, retro_mmus_2371, retro_mmus_2389, retro_mmus_2463, retro_mmus_2477, retro_mmus_2481, retro_mmus_2512, retro_mmus_2556, retro_mmus_2587, retro_mmus_2623, retro_mmus_2626, retro_mmus_2647, retro_mmus_2681, retro_mmus_2755, retro_mmus_2761, retro_mmus_2764, retro_mmus_2848, retro_mmus_2872, retro_mmus_2911, retro_mmus_2912, retro_mmus_2913, retro_mmus_2914, retro_mmus_2915, retro_mmus_2920, retro_mmus_2932, retro_mmus_2943, retro_mmus_300, retro_mmus_3036, retro_mmus_3064, retro_mmus_3120, retro_mmus_3137, retro_mmus_3140, retro_mmus_3148, retro_mmus_3151, retro_mmus_3188, retro_mmus_3193, retro_mmus_3197, retro_mmus_3216, retro_mmus_3228, retro_mmus_3306, retro_mmus_3335, retro_mmus_3336, retro_mmus_3357, retro_mmus_3377, retro_mmus_3445, retro_mmus_3514, retro_mmus_3575, retro_mmus_3650, retro_mmus_3658, retro_mmus_3693, retro_mmus_3716, retro_mmus_3814, retro_mmus_416, retro_mmus_437, retro_mmus_48, retro_mmus_553, retro_mmus_608, retro_mmus_619, retro_mmus_628, retro_mmus_635, retro_mmus_698, retro_mmus_745, retro_mmus_765, retro_mmus_766, retro_mmus_787, retro_mmus_811, retro_mmus_893, retro_mmus_914, retro_mmus_921, retro_mmus_946, retro_mmus_952, retro_mmus_976, retro_mmus_996,
Nomascus leucogenys ENSNLEG0000000382544 retrocopies
Ornithorhynchus anatinus ENSOANG000000044921 retrocopy
Ochotona princeps ENSOPRG0000001251410 retrocopies
Procavia capensis ENSPCAG000000069289 retrocopies
Pongo abelii ENSPPYG0000000418938 retrocopies
Pan troglodytes ENSPTRG0000000457743 retrocopies
Pteropus vampyrus ENSPVAG0000001257014 retrocopies
Rattus norvegicus ENSRNOG000000186304 retrocopies
Rattus norvegicus ENSRNOG00000030638 2 retrocopies
retro_rnor_1571, retro_rnor_1777 ,
Sarcophilus harrisii ENSSHAG000000149534 retrocopies
Sus scrofa ENSSSCG000000006942 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000075389 retrocopies
Tursiops truncatus ENSTTRG000000160942 retrocopies
Xenopus tropicalis ENSXETG000000339751 retrocopy



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