RetrogeneDB ID:

retro_meug_2103

Retrocopy
location
Organism:Wallaby (Macropus eugenii)
Coordinates:Scaffold90595:3420..4088(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPS2
Ensembl ID:ENSMEUG00000004508
Aliases:None
Description:ribosomal protein S2 [Source:HGNC Symbol;Acc:10404]


Retrocopy-Parental alignment summary:






>retro_meug_2103
AAGGACATGAAGATGAAGTCTTTGGAAGAGACCTACCTGTTCTCCCTTCCTATCAAGGAGTCTGAGATCATAGATTTCTT
CCTCGGATGTTCATTGAAAAATGAGATTCTGAAGATCATGCCTGTTCAGAAACCATCTAGAGCTGGGCAGCATACCAGGG
TCAAGGCTTTTGTGGCCATCCGAGACTACAATGGCCATATTGGTATGGGTGTCAGGTGCTCCAAGGAAGTGACCACAGCT
ATTCGTGGTGCTATCATTCTGGCCAAGCTGCCCATTGTTCCTGTGAGATGTGGCTACTGGGGGAACTAGATTGGCAAGCC
TTGCACAGTGCCCTGTAAGTTCACTGGGGGATGTGGATCGGTTCTGGTGTGCCTGATCCCTGCCCCTAGAGGCACTGGCA
TTGTTCAGCTCCTGTGCCTAAGAAGCTCCTGATGATGACTGGAATTGATGACTGCTACACGTCTGCAAGAGGATGTACTT
CCACTCTGGGCAACTTTGCTAAAGCTACTTTTTATGCCATCTCCAAAACATATAGCTACCTAACCCCAGACCTGTGGAAG
GAGACTGTGATTACTAAGTCTCCTTATCAGGAATTCACTGACCATCTTGTGAAGACTCACACTCCAGTGTCTGTCCAGAG
GACCCAGGCAGCTGCTGTGGCAACCACA

ORF - retro_meug_2103 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 87.5 %
Parental protein coverage: 100. %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalKDMKIK-LEEIYLFSLPIKESEIIDFFLGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDYNGHVGLG
KDMK.K.LEE.YLFSLPIKESEIIDFFLG.SLK.E.LKIMPVQK..RAGQ.TR.KAFVAI.DYNGH.G.G
RetrocopyKDMKMKSLEETYLFSLPIKESEIIDFFLGCSLKNEILKIMPVQKPSRAGQHTRVKAFVAIRDYNGHIGMG
ParentalVKCSKEVATAIRGAIILAKLSIVPVRRGYWGNKIGKPHTVPCKVTGRCGSVLVRLIPAPRGTGIV-SAPV
V.CSKEV.TAIRGAIILAKL.IVPVR.GYWGN.IGKP.TVPCK.TG.CGSVLV.LIPAPRGTGIV.SAPV
RetrocopyVRCSKEVTTAIRGAIILAKLPIVPVRCGYWGN*IGKPCTVPCKFTGGCGSVLVCLIPAPRGTGIV<SAPV
ParentalPKKLLMMAGIDDCYTSARGCTATLGNFAKATFDAISKTYSYLTPDLWKETVFTKSPYQEFTDHLVKTHTR
PKKLLMM.GIDDCYTSARGCT.TLGNFAKATF.AISKTYSYLTPDLWKETV.TKSPYQEFTDHLVKTHT.
RetrocopyPKKLLMMTGIDDCYTSARGCTSTLGNFAKATFYAISKTYSYLTPDLWKETVITKSPYQEFTDHLVKTHTP
ParentalVSVQRTQAAAVATT
VSVQRTQAAAVATT
RetrocopyVSVQRTQAAAVATT

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






RNA-Seq - click to see more details

Macropus eugenii was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Macropus eugenii was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_meug_2103 retrocopy.

TSS - click to see more details

Macropus eugenii was not studied using FANTOM5 data.

Lab - click to see more details

retro_meug_2103 was not experimentally validated.

Retrocopy orthology:
Macropus eugenii 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 20 parental genes, and 186 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000025491 retrocopy
retro_acar_57,
Ailuropoda melanoleuca ENSAMEG000000073661 retrocopy
retro_amel_305,
Canis familiaris ENSCAFG0000001947219 retrocopies
retro_cfam_1028, retro_cfam_1252, retro_cfam_1321, retro_cfam_1460, retro_cfam_1560, retro_cfam_1592, retro_cfam_1842, retro_cfam_1848, retro_cfam_1932, retro_cfam_1983, retro_cfam_2007, retro_cfam_2012, retro_cfam_2046, retro_cfam_2053, retro_cfam_2110, retro_cfam_271, retro_cfam_323, retro_cfam_490, retro_cfam_629,
Callithrix jacchus ENSCJAG0000001526715 retrocopies
retro_cjac_1482, retro_cjac_1585, retro_cjac_1609, retro_cjac_1712, retro_cjac_1964, retro_cjac_2201, retro_cjac_2255, retro_cjac_2284, retro_cjac_2361, retro_cjac_2493, retro_cjac_2620, retro_cjac_274, retro_cjac_317, retro_cjac_3741, retro_cjac_4194,
Cavia porcellus ENSCPOG0000001165111 retrocopies
retro_cpor_1030, retro_cpor_1238, retro_cpor_1376, retro_cpor_1469, retro_cpor_1527, retro_cpor_177, retro_cpor_19, retro_cpor_437, retro_cpor_718, retro_cpor_769, retro_cpor_808,
Felis catus ENSFCAG000000291916 retrocopies
retro_fcat_1245, retro_fcat_1328, retro_fcat_1606, retro_fcat_1610, retro_fcat_1737, retro_fcat_517,
Gorilla gorilla ENSGGOG000000093715 retrocopies
retro_ggor_129, retro_ggor_1391, retro_ggor_1428, retro_ggor_168, retro_ggor_390,
Loxodonta africana ENSLAFG0000000469611 retrocopies
retro_lafr_1072, retro_lafr_1092, retro_lafr_1103, retro_lafr_174, retro_lafr_284, retro_lafr_327, retro_lafr_376, retro_lafr_75, retro_lafr_801, retro_lafr_812, retro_lafr_917,
Macropus eugenii ENSMEUG00000004508 2 retrocopies
retro_meug_156, retro_meug_2103 ,
Myotis lucifugus ENSMLUG000000116601 retrocopy
retro_mluc_76,
Monodelphis domestica ENSMODG000000160771 retrocopy
retro_mdom_536,
Mustela putorius furoENSMPUG0000001554711 retrocopies
retro_mputfur_1100, retro_mputfur_1209, retro_mputfur_1212, retro_mputfur_1214, retro_mputfur_1391, retro_mputfur_1497, retro_mputfur_1566, retro_mputfur_369, retro_mputfur_540, retro_mputfur_624, retro_mputfur_931,
Mus musculus ENSMUSG000000445331 retrocopy
retro_mmus_148,
Nomascus leucogenys ENSNLEG000000088771 retrocopy
retro_nleu_2895,
Otolemur garnettii ENSOGAG0000001009819 retrocopies
retro_ogar_1051, retro_ogar_1120, retro_ogar_1205, retro_ogar_1557, retro_ogar_1821, retro_ogar_1835, retro_ogar_1837, retro_ogar_1851, retro_ogar_2101, retro_ogar_2164, retro_ogar_2313, retro_ogar_2648, retro_ogar_2817, retro_ogar_2842, retro_ogar_2965, retro_ogar_3109, retro_ogar_3177, retro_ogar_3180, retro_ogar_794,
Rattus norvegicus ENSRNOG0000001417912 retrocopies
retro_rnor_1882, retro_rnor_2191, retro_rnor_2257, retro_rnor_2274, retro_rnor_2903, retro_rnor_438, retro_rnor_631, retro_rnor_681, retro_rnor_690, retro_rnor_809, retro_rnor_810, retro_rnor_878,
Sarcophilus harrisii ENSSHAG000000152135 retrocopies
retro_shar_186, retro_shar_288, retro_shar_456, retro_shar_525, retro_shar_783,
Sus scrofa ENSSSCG000000228598 retrocopies
retro_sscr_280, retro_sscr_293, retro_sscr_412, retro_sscr_486, retro_sscr_729, retro_sscr_803, retro_sscr_950, retro_sscr_951,
Ictidomys tridecemlineatus ENSSTOG000000129444 retrocopies
retro_itri_1239, retro_itri_1666, retro_itri_1680, retro_itri_221,
Tarsius syrichta ENSTSYG0000001346652 retrocopies
retro_tsyr_1069, retro_tsyr_1078, retro_tsyr_1147, retro_tsyr_1301, retro_tsyr_131, retro_tsyr_1317, retro_tsyr_1466, retro_tsyr_1478, retro_tsyr_1498, retro_tsyr_1505, retro_tsyr_1509, retro_tsyr_1536, retro_tsyr_1564, retro_tsyr_1568, retro_tsyr_1588, retro_tsyr_1614, retro_tsyr_1636, retro_tsyr_1658, retro_tsyr_169, retro_tsyr_1789, retro_tsyr_1804, retro_tsyr_1827, retro_tsyr_186, retro_tsyr_1929, retro_tsyr_1935, retro_tsyr_2016, retro_tsyr_2175, retro_tsyr_290, retro_tsyr_349, retro_tsyr_415, retro_tsyr_417, retro_tsyr_463, retro_tsyr_472, retro_tsyr_525, retro_tsyr_527, retro_tsyr_545, retro_tsyr_568, retro_tsyr_604, retro_tsyr_605, retro_tsyr_609, retro_tsyr_61, retro_tsyr_622, retro_tsyr_638, retro_tsyr_650, retro_tsyr_672, retro_tsyr_689, retro_tsyr_691, retro_tsyr_699, retro_tsyr_768, retro_tsyr_773, retro_tsyr_922, retro_tsyr_980,


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