RetrogeneDB ID:

retro_meug_1337

Retrocopy
location
Organism:Wallaby (Macropus eugenii)
Coordinates:Scaffold372340:204..627(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL10A
Ensembl ID:ENSMEUG00000005760
Aliases:None
Description:ribosomal protein L10a [Source:HGNC Symbol;Acc:10299]


Retrocopy-Parental alignment summary:






>retro_meug_1337
CTGTGGATAATTCCAAAGAACTATGATCTCCAGAAGGACAAACATTTCTCTAGCATCATAAGACTCAATTCCACACCCCA
ACCTAAGTTTTCTTTGTGACTGCTGGGAGACTAGAGTCACTGCAATGGAGCTAAGGCCCACACAAATATGAAGGCATTGA
AAAAGTTGAATTAGAACAAGATGTTGGTCAAGAAGCTGCCCAAAATGGAGGGTGCCTCTAAATCTTTGATCAAGAAAGTC
CTTCCAATACTGGGCTCTGATCTGAACAAAACTGGCAAGTGTCCATCTCTGCTCATCCACAAAGAGAATATGGTGGCCAA
GAGGGATGAAGTAAAATTTATTATCAACTTCCAGATGATAAAGGTACTGCATTTGCCAGTAACTGGTGGCCATATGAAGG
TGACAGAGGACAAATTTGTCTAT

ORF - retro_meug_1337 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 57.43 %
Parental protein coverage: 68.84 %
Number of stop codons detected: 3
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalLQISLKNYDPQKDKRFSGTVRLKSTPRPKFSVCVLGDQQHCDEAKAVEIPHMDIEALKKLNKNKKLVKKL
L.I..KNYD.QKDK.FS...RL.STP.PKFS...LGD..HC..AKA....H....ALKKLN.NK....K.
RetrocopyLWIIPKNYDLQKDKHFSSIIRLNSTPQPKFSL*LLGD*SHCNGAKA----HTNMKALKKLN*NK-MLVKK
ParentalAKKYDAFLASESLIKQIPRILGPGLNKAGKFPSLLTHNENMVAKVDEVKSTIKFQMKKVLCLAVAVGHVK
..K.....AS.SLIK....ILG..LNK.GK.PSLL.H.ENMVAK.DEVK..I.FQM.KVL.L.V..GH.K
RetrocopyLPKMEG--ASKSLIKKVLPILGSDLNKTGKCPSLLIHKENMVAKRDEVKFIINFQMIKVLHLPVTGGHMK
ParentalMTDDELVY
.T.D..VY
RetrocopyVTEDKFVY

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_1337 retrocopy.

TSS - click to see more details

Macropus eugenii was not studied using FANTOM5 data.

Lab - click to see more details

retro_meug_1337 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 26 parental genes, and 176 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG0000000067013 retrocopies
retro_amel_1144, retro_amel_1223, retro_amel_1262, retro_amel_1591, retro_amel_1813, retro_amel_198, retro_amel_318, retro_amel_320, retro_amel_417, retro_amel_520, retro_amel_609, retro_amel_710, retro_amel_970,
Bos taurus ENSBTAG000000194944 retrocopies
retro_btau_138, retro_btau_1501, retro_btau_1634, retro_btau_87,
Canis familiaris ENSCAFG0000000131818 retrocopies
retro_cfam_1118, retro_cfam_1200, retro_cfam_1222, retro_cfam_124, retro_cfam_1501, retro_cfam_1775, retro_cfam_1867, retro_cfam_2002, retro_cfam_2141, retro_cfam_281, retro_cfam_337, retro_cfam_347, retro_cfam_413, retro_cfam_847, retro_cfam_907, retro_cfam_911, retro_cfam_920, retro_cfam_986,
Dasypus novemcinctus ENSDNOG000000129213 retrocopies
retro_dnov_157, retro_dnov_1917, retro_dnov_469,
Equus caballus ENSECAG000000140902 retrocopies
retro_ecab_512, retro_ecab_517,
Echinops telfairi ENSETEG000000133252 retrocopies
retro_etel_1974, retro_etel_326,
Felis catus ENSFCAG000000129047 retrocopies
retro_fcat_1144, retro_fcat_1488, retro_fcat_1561, retro_fcat_1971, retro_fcat_210, retro_fcat_262, retro_fcat_560,
Homo sapiens ENSG0000019875513 retrocopies
retro_hsap_142, retro_hsap_1462, retro_hsap_1710, retro_hsap_177, retro_hsap_1935, retro_hsap_2795, retro_hsap_3025, retro_hsap_3245, retro_hsap_3353, retro_hsap_337, retro_hsap_3949, retro_hsap_4025, retro_hsap_4040,
Gorilla gorilla ENSGGOG0000002814010 retrocopies
retro_ggor_1, retro_ggor_1124, retro_ggor_1282, retro_ggor_1407, retro_ggor_2088, retro_ggor_2273, retro_ggor_234, retro_ggor_2702, retro_ggor_358, retro_ggor_57,
Macropus eugenii ENSMEUG00000005760 6 retrocopies
retro_meug_1337 , retro_meug_1578, retro_meug_2066, retro_meug_407, retro_meug_541, retro_meug_705,
Microcebus murinus ENSMICG000000124583 retrocopies
retro_mmur_1381, retro_mmur_384, retro_mmur_93,
Myotis lucifugus ENSMLUG0000000008010 retrocopies
retro_mluc_1053, retro_mluc_1526, retro_mluc_1611, retro_mluc_1815, retro_mluc_1963, retro_mluc_1964, retro_mluc_2519, retro_mluc_751, retro_mluc_902, retro_mluc_918,
Macaca mulatta ENSMMUG000000159076 retrocopies
retro_mmul_1931, retro_mmul_2041, retro_mmul_2321, retro_mmul_2330, retro_mmul_306, retro_mmul_583,
Monodelphis domestica ENSMODG000000137662 retrocopies
retro_mdom_276, retro_mdom_499,
Mus musculus ENSMUSG000000378058 retrocopies
retro_mmus_1110, retro_mmus_1304, retro_mmus_1422, retro_mmus_149, retro_mmus_1737, retro_mmus_2038, retro_mmus_2652, retro_mmus_452,
Nomascus leucogenys ENSNLEG0000000865013 retrocopies
retro_nleu_1174, retro_nleu_1210, retro_nleu_1697, retro_nleu_1778, retro_nleu_1980, retro_nleu_2055, retro_nleu_2342, retro_nleu_2436, retro_nleu_2879, retro_nleu_662, retro_nleu_838, retro_nleu_986, retro_nleu_989,
Ornithorhynchus anatinus ENSOANG000000145741 retrocopy
retro_oana_86,
Oryctolagus cuniculus ENSOCUG000000040652 retrocopies
retro_ocun_130, retro_ocun_4,
Pongo abelii ENSPPYG0000001652910 retrocopies
retro_pabe_1208, retro_pabe_1597, retro_pabe_2614, retro_pabe_2759, retro_pabe_3302, retro_pabe_3315, retro_pabe_3377, retro_pabe_357, retro_pabe_451, retro_pabe_475,
Pan troglodytes ENSPTRG0000001808513 retrocopies
retro_ptro_1157, retro_ptro_1293, retro_ptro_142, retro_ptro_167, retro_ptro_1892, retro_ptro_2041, retro_ptro_2134, retro_ptro_2193, retro_ptro_2681, retro_ptro_269, retro_ptro_2729, retro_ptro_2737, retro_ptro_994,
Pteropus vampyrus ENSPVAG000000027639 retrocopies
retro_pvam_1107, retro_pvam_1223, retro_pvam_123, retro_pvam_1294, retro_pvam_1440, retro_pvam_345, retro_pvam_722, retro_pvam_775, retro_pvam_906,
Rattus norvegicus ENSRNOG000000005054 retrocopies
retro_rnor_2302, retro_rnor_37, retro_rnor_400, retro_rnor_43,
Sarcophilus harrisii ENSSHAG000000020471 retrocopy
retro_shar_438,
Sus scrofa ENSSSCG000000015437 retrocopies
retro_sscr_1169, retro_sscr_1174, retro_sscr_120, retro_sscr_246, retro_sscr_379, retro_sscr_461, retro_sscr_465,
Ictidomys tridecemlineatus ENSSTOG000000233663 retrocopies
retro_itri_1097, retro_itri_524, retro_itri_847,
Tursiops truncatus ENSTTRG000000094316 retrocopies
retro_ttru_100, retro_ttru_1137, retro_ttru_1325, retro_ttru_1477, retro_ttru_205, retro_ttru_494,


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