RetrogeneDB ID:

retro_mluc_1928

Retrocopy
location
Organism:Microbat (Myotis lucifugus)
Coordinates:GL429954:1454107..1454839(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMLUG00000010382
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:RPS6
Ensembl ID:ENSMLUG00000007588
Aliases:None
Description:40S ribosomal protein S6 [Source:UniProtKB/TrEMBL;Acc:G1P9K5]


Retrocopy-Parental alignment summary:






>retro_mluc_1928
ATAAAGCTAAACATCTCTTTCCCAGTCCCTGGCTGTCAGAAACTCATTGAAGTGGATGATGAATGCAAACGTCGTACCTT
TTATGAGAAGCGTATGGCCACAGAAGTTGCTCCTGATGCTCTGGGTGAAGAGTGGAAGGGTTATGTGGTTCAAATCAGTG
GTGGAGATGACAAACAAGGTTTCCTCATGAAGCTGGCCATCGCCATGTCTGCCTGCTGCTGAGTAAGGGTCATTCCTGTT
ATAGACCAAGGACTAGAGAGAGAAAACGCAAATCTATTCGGGGTTGCATTGTAGGTGCCAATCTCAGTGTTCTCAACTGG
GTCATTGTAAAAGAAGGGGGGAAAGATATTTCTGGTCTTACTGATACCACTGTGCCTCGTCGCCTGGGGCCCAAAAGAGC
TAGCAGATTCCACAAACTTTCACTCTCTCTAAAGAAGATGATGTCTGCCAATATGTTGTGAGAAAACCCTAAACAAAGAA
GCTAAAAAACCTTGGACCAAAGCACTCAATATTCAGAGTCTTGTTACTCCATGCATCCTGCCACACAAACACTGGCATGT
TGCTCTGAAGAAACAACGTACTAAGAAAAGTAAGGAAGAGGCTGCAGAGTATGCTAAACTTTTGGCAAAGAGAAGGAAGG
AGGCCAAAGAAAAACGCCAAGAACAGATTGCCAAGAGACATGGGCTGTCCTCTCTGAGAGTTTCTACTTCTATATCTGAG
TCCAGTCAAAAA

ORF - retro_mluc_1928 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 79.76 %
Parental protein coverage: 100.0 %
Number of stop codons detected: 0
Number of frameshifts detected: 3


Retrocopy - Parental Gene Alignment:

ParentalMKLNISFPATGCQKLIEVDDERKLRTFYEKRMATEVAADALGEEWKGYVVRISGGNDKQG-FPMKQGVLT
.KLNISFP..GCQKLIEVDDE.K.RTFYEKRMATEVA.DALGEEWKGYVV.ISGG.DKQG.FP...G...
RetrocopyIKLNISFPVPGCQKLIEVDDECKRRTFYEKRMATEVAPDALGEEWKGYVVQISGGDDKQG<FPHEAG---
ParentalHGRVRLLLSKGHSCYRPRRTGERKRKSVRGCIVDANLSVLNLVIVKKGEKDIPGLTDTTVPRRLGPKRAS
H..V.LLLSKGHSCYRPR.T.ERKRKS.RGCIV.ANLSVLN.VIVK.G.KDI.GLTDTTVPRRLGPKRAS
RetrocopyHRHVCLLLSKGHSCYRPR-TRERKRKSIRGCIVGANLSVLNWVIVKEGGKDISGLTDTTVPRRLGPKRAS
ParentalRIRKL-FNLSKEDDVRKYVVRKP-LNKEGKKPRTKAPKIQRLVTPRVLQHKRRRIALKKQRTKKNKEEAA
R..KL.F.LSKEDDV..YVVRKP.LNKE.KKP.TKA..IQ.LVTP..L.HK....ALKKQRTKK.KEEAA
RetrocopyRFHKL<FTLSKEDDVCQYVVRKP<LNKEAKKPWTKALNIQSLVTPCILPHKHWHVALKKQRTKKSKEEAA
ParentalEYAKLLAKRMKEAKEKRQEQIAKRRRLSSLRASTSKSESSQK
EYAKLLAKR.KEAKEKRQEQIAKR..LSSLR.STS.SESSQK
RetrocopyEYAKLLAKRRKEAKEKRQEQIAKRHGLSSLRVSTSISESSQK

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






RNA-Seq - click to see more details

Myotis lucifugus was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Myotis lucifugus was not studied using ChIP-Seq data.

EST - click to see more details

Myotis lucifugus was not studied using EST data.

TSS - click to see more details

Myotis lucifugus was not studied using FANTOM5 data.

Lab - click to see more details

retro_mluc_1928 was not experimentally validated.

Retrocopy orthology:
Myotis lucifugus 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 19 parental genes, and 195 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000176341 retrocopy
retro_acar_20,
Choloepus hoffmanni ENSCHOG0000000462215 retrocopies
retro_chof_1018, retro_chof_1101, retro_chof_1107, retro_chof_1590, retro_chof_193, retro_chof_2036, retro_chof_2037, retro_chof_2051, retro_chof_2188, retro_chof_2363, retro_chof_2455, retro_chof_2486, retro_chof_2608, retro_chof_849, retro_chof_941,
Cavia porcellus ENSCPOG000000037504 retrocopies
retro_cpor_1244, retro_cpor_22, retro_cpor_317, retro_cpor_486,
Dipodomys ordii ENSDORG000000120572 retrocopies
retro_dord_37, retro_dord_452,
Echinops telfairi ENSETEG0000000158418 retrocopies
retro_etel_1143, retro_etel_1281, retro_etel_1410, retro_etel_1430, retro_etel_1575, retro_etel_167, retro_etel_1822, retro_etel_188, retro_etel_1964, retro_etel_2004, retro_etel_2041, retro_etel_2194, retro_etel_263, retro_etel_337, retro_etel_378, retro_etel_541, retro_etel_809, retro_etel_825,
Ficedula albicollis ENSFALG000000030781 retrocopy
retro_falb_24,
Homo sapiens ENSG0000013715416 retrocopies
retro_hsap_1009, retro_hsap_1067, retro_hsap_1231, retro_hsap_1310, retro_hsap_1967, retro_hsap_2184, retro_hsap_2298, retro_hsap_3045, retro_hsap_3996, retro_hsap_4122, retro_hsap_4235, retro_hsap_4279, retro_hsap_4860, retro_hsap_731, retro_hsap_818, retro_hsap_966,
Loxodonta africana ENSLAFG000000107664 retrocopies
retro_lafr_1021, retro_lafr_1239, retro_lafr_59, retro_lafr_667,
Myotis lucifugus ENSMLUG00000007588 27 retrocopies
retro_mluc_1041, retro_mluc_1146, retro_mluc_1169, retro_mluc_1393, retro_mluc_1411, retro_mluc_1448, retro_mluc_1472, retro_mluc_1532, retro_mluc_1566, retro_mluc_1593, retro_mluc_1629, retro_mluc_1635, retro_mluc_1723, retro_mluc_1799, retro_mluc_1909, retro_mluc_1928 , retro_mluc_1933, retro_mluc_2110, retro_mluc_2129, retro_mluc_490, retro_mluc_493, retro_mluc_514, retro_mluc_557, retro_mluc_652, retro_mluc_678, retro_mluc_722, retro_mluc_830,
Monodelphis domestica ENSMODG000000040951 retrocopy
retro_mdom_301,
Nomascus leucogenys ENSNLEG0000001753214 retrocopies
retro_nleu_1033, retro_nleu_1333, retro_nleu_1613, retro_nleu_226, retro_nleu_2471, retro_nleu_252, retro_nleu_2536, retro_nleu_2611, retro_nleu_2652, retro_nleu_2655, retro_nleu_2860, retro_nleu_313, retro_nleu_476, retro_nleu_546,
Otolemur garnettii ENSOGAG0000001625421 retrocopies
retro_ogar_1208, retro_ogar_1222, retro_ogar_1335, retro_ogar_1356, retro_ogar_1359, retro_ogar_1439, retro_ogar_1526, retro_ogar_1531, retro_ogar_1612, retro_ogar_1979, retro_ogar_2174, retro_ogar_2195, retro_ogar_2248, retro_ogar_2264, retro_ogar_2514, retro_ogar_2707, retro_ogar_2853, retro_ogar_3329, retro_ogar_462, retro_ogar_575, retro_ogar_782,
Ochotona princeps ENSOPRG000000122905 retrocopies
retro_opri_123, retro_opri_642, retro_opri_78, retro_opri_862, retro_opri_895,
Pan troglodytes ENSPTRG0000003915319 retrocopies
retro_ptro_1313, retro_ptro_1442, retro_ptro_1627, retro_ptro_1662, retro_ptro_1994, retro_ptro_2442, retro_ptro_2713, retro_ptro_2799, retro_ptro_2878, retro_ptro_2902, retro_ptro_2938, retro_ptro_3235, retro_ptro_519, retro_ptro_569, retro_ptro_669, retro_ptro_749, retro_ptro_785, retro_ptro_799, retro_ptro_845,
Rattus norvegicus ENSRNOG0000000766321 retrocopies
retro_rnor_1092, retro_rnor_1093, retro_rnor_1269, retro_rnor_1484, retro_rnor_1556, retro_rnor_1564, retro_rnor_1845, retro_rnor_1901, retro_rnor_1991, retro_rnor_2071, retro_rnor_2073, retro_rnor_2187, retro_rnor_2332, retro_rnor_2447, retro_rnor_2781, retro_rnor_2790, retro_rnor_558, retro_rnor_756, retro_rnor_896, retro_rnor_942, retro_rnor_943,
Sorex araneus ENSSARG000000065496 retrocopies
retro_sara_284, retro_sara_369, retro_sara_392, retro_sara_436, retro_sara_512, retro_sara_710,
Sarcophilus harrisii ENSSHAG000000054861 retrocopy
retro_shar_549,
Tarsius syrichta ENSTSYG000000085698 retrocopies
retro_tsyr_1048, retro_tsyr_116, retro_tsyr_1521, retro_tsyr_2090, retro_tsyr_347, retro_tsyr_535, retro_tsyr_757, retro_tsyr_87,
Tursiops truncatus ENSTTRG0000000178711 retrocopies
retro_ttru_1024, retro_ttru_107, retro_ttru_1275, retro_ttru_370, retro_ttru_468, retro_ttru_587, retro_ttru_748, retro_ttru_786, retro_ttru_878, retro_ttru_905, retro_ttru_934,


Copyright © RetrogeneDB 2014-2017