RetrogeneDB ID:

retro_mluc_1638

Retrocopy
location
Organism:Microbat (Myotis lucifugus)
Coordinates:GL429876:2595259..2596047(+)
Located in intron of:ENSMLUG00000017446
Retrocopy
information
Ensembl ID:ENSMLUG00000024934
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:RPS4X
Ensembl ID:ENSMLUG00000011685
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_mluc_1638
ATGGCTCATGGTCCCAAGAAGCATCTGAAGTGTGTAGCAGCTCCAAATCATTGGATGCTGGATAAATTGACCGGTGTGTT
TGCTCCTCGGCCATCTACCGGTCCCCACATGCTGAGAGAATGTCTCCCTCTCATAATTTTCTTAAGGAACAGACTTAAGT
ATGCTCTAACAGGAGATGAAGTAAAGAAGACTTGCATGCAGCGGTTTATTAAGATTGATGGCAAGGTCCGAACCAATATA
ACCTACCCTGCTGGTTTTACGATGTCATCAGCATTGACAAGACTGGAGAGAATTTCCGCCTGATCTATGACACTAAGGGC
CGCTTTGCTGTTTATCGTATTACACCTGAGGAGGCCAAGTACAAGTTATGCAAAGTGAGGAAGATCTTTGTGGGCACAAA
AGGAATCCCTCATCTGGTAACCCATGATGCTCGCACCATCTGCTACCCTGATCCCCTCATCAAGGTGAATGACACCATTC
AGATTGAGTTGGAGACTGGCAGAATTACTGTTTTCATCAAGACTGACAATGGTAACCTGTGCATGGTGACCGGAGGTGCC
AACCTGGGAAGAATTGGTGTGATCACCAACAGGGAGAGGCACCGTGGCTCTTTTGACATAGTTCATGTGAAAGATGCCAA
TGGCAACAGTTTTGCCACCCAGCTCTCCAACATTTTTGTAATTGGCAAAGGCAACAAACCATGGATTTCCCTACCCTGTG
GAAAGGGTATCTGCCTCACCATTGCTGAAGAGAGAGACAAGAGAATGGCGGCCAAACAAAGCAGTGGG

ORF - retro_mluc_1638 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 91.67 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMARGPKKHLKRVAAPKHWMLDKLTGVFAPRPSTGPHKLRECLPLIIFLRNRLKYALTGDEVKKICMQRFI
MA.GPKKHLK.VAAP.HWMLDKLTGVFAPRPSTGPH.LRECLPLIIFLRNRLKYALTGDEVKK.CMQRFI
RetrocopyMAHGPKKHLKCVAAPNHWMLDKLTGVFAPRPSTGPHMLRECLPLIIFLRNRLKYALTGDEVKKTCMQRFI
ParentalKIDGKVRTDITYPAGFM-DVISIDKTGENFRLIYDTKGRFAVHRITPEEAKYKLCKVRKIFVGTKGIPHL
KIDGKVRT.ITYPAGF..DVISIDKTGENFRLIYDTKGRFAV.RITPEEAKYKLCKVRKIFVGTKGIPHL
RetrocopyKIDGKVRTNITYPAGFT<DVISIDKTGENFRLIYDTKGRFAVYRITPEEAKYKLCKVRKIFVGTKGIPHL
ParentalVTHDARTIRYPDPLIKVNDTIQIDLETGKITDFIKFDTGNLCMVTGGANLGRIGIITNRERHPGSFDVVH
VTHDARTI.YPDPLIKVNDTIQI.LETG.IT.FIK.D.GNLCMVTGGANLGRIG.ITNRERH.GSFD.VH
RetrocopyVTHDARTICYPDPLIKVNDTIQIELETGRITVFIKTDNGNLCMVTGGANLGRIGVITNRERHRGSFDIVH
ParentalVKDANGNSFATRLSNIFVIGKGNKPWISLPRGKGIRLTIAEERDKRLAAKQSSG
VKDANGNSFAT.LSNIFVIGKGNKPWISLP.GKGI.LTIAEERDKR.AAKQSSG
RetrocopyVKDANGNSFATQLSNIFVIGKGNKPWISLPCGKGICLTIAEERDKRMAAKQSSG

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_1638 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 21 parental genes, and 116 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000146011 retrocopy
retro_acar_82,
Bos taurus ENSBTAG000000188005 retrocopies
retro_btau_119, retro_btau_125, retro_btau_146, retro_btau_33, retro_btau_76,
Canis familiaris ENSCAFG000000171512 retrocopies
retro_cfam_165, retro_cfam_194,
Cavia porcellus ENSCPOG000000063373 retrocopies
retro_cpor_1023, retro_cpor_1075, retro_cpor_31,
Dipodomys ordii ENSDORG000000085714 retrocopies
retro_dord_289, retro_dord_650, retro_dord_68, retro_dord_745,
Equus caballus ENSECAG000000108526 retrocopies
retro_ecab_34, retro_ecab_435, retro_ecab_443, retro_ecab_614, retro_ecab_757, retro_ecab_850,
Homo sapiens ENSG000001298241 retrocopy
retro_hsap_1704,
Loxodonta africana ENSLAFG000000026544 retrocopies
retro_lafr_1007, retro_lafr_1081, retro_lafr_1238, retro_lafr_208,
Macropus eugenii ENSMEUG0000000796916 retrocopies
retro_meug_131, retro_meug_141, retro_meug_1644, retro_meug_1732, retro_meug_1814, retro_meug_194, retro_meug_2098, retro_meug_2121, retro_meug_228, retro_meug_562, retro_meug_628, retro_meug_673, retro_meug_843, retro_meug_872, retro_meug_972, retro_meug_999,
Meleagris gallopavo ENSMGAG000000096711 retrocopy
retro_mgal_3,
Myotis lucifugus ENSMLUG00000011685 5 retrocopies
retro_mluc_1638 , retro_mluc_2253, retro_mluc_301, retro_mluc_536, retro_mluc_736,
Monodelphis domestica ENSMODG000000110701 retrocopy
retro_mdom_238,
Mustela putorius furoENSMPUG0000000529411 retrocopies
retro_mputfur_1044, retro_mputfur_1176, retro_mputfur_1325, retro_mputfur_1326, retro_mputfur_1393, retro_mputfur_160, retro_mputfur_205, retro_mputfur_48, retro_mputfur_725, retro_mputfur_876, retro_mputfur_988,
Otolemur garnettii ENSOGAG000000118082 retrocopies
retro_ogar_121, retro_ogar_229,
Procavia capensis ENSPCAG000000007613 retrocopies
retro_pcap_334, retro_pcap_35, retro_pcap_360,
Pan troglodytes ENSPTRG000000224701 retrocopy
retro_ptro_1153,
Pteropus vampyrus ENSPVAG0000001288221 retrocopies
retro_pvam_1021, retro_pvam_1082, retro_pvam_1158, retro_pvam_1264, retro_pvam_1298, retro_pvam_1312, retro_pvam_1327, retro_pvam_1364, retro_pvam_1419, retro_pvam_177, retro_pvam_191, retro_pvam_214, retro_pvam_219, retro_pvam_335, retro_pvam_473, retro_pvam_628, retro_pvam_714, retro_pvam_809, retro_pvam_835, retro_pvam_921, retro_pvam_930,
Rattus norvegicus ENSRNOG000000032011 retrocopy
retro_rnor_135,
Ictidomys tridecemlineatus ENSSTOG000000286928 retrocopies
retro_itri_1179, retro_itri_1607, retro_itri_291, retro_itri_306, retro_itri_368, retro_itri_495, retro_itri_738, retro_itri_985,
Tarsius syrichta ENSTSYG0000000313716 retrocopies
retro_tsyr_1159, retro_tsyr_1167, retro_tsyr_118, retro_tsyr_1302, retro_tsyr_1333, retro_tsyr_1774, retro_tsyr_1792, retro_tsyr_1931, retro_tsyr_1936, retro_tsyr_2116, retro_tsyr_409, retro_tsyr_440, retro_tsyr_522, retro_tsyr_529, retro_tsyr_750, retro_tsyr_917,
Vicugna pacos ENSVPAG000000109524 retrocopies
retro_vpac_244, retro_vpac_460, retro_vpac_604, retro_vpac_653,


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