RetrogeneDB ID:

retro_meug_2020

Retrocopy
location
Organism:Wallaby (Macropus eugenii)
Coordinates:Scaffold8043:14153..15080(+)
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:ENSMEUG00000002921
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_meug_2020
ATTTCCTCCTAATACGATCATCAGGCAGAGGAATACCTTCCCAAGTGAATAGAAGTTGCATTTTTGACTATTGAAACAAA
CTTTCAGCTGGACTTACAAGATGGCATAATCCTCTGTGAATTTATAAACAACCTCCAGCCAGCTTCAGTGAAGAAAGTCA
ATGAGTCTTCATTAAACTGGCCTCAGTTGGAGAACATCTGCAATTTTGTCAAAGCTGTTCAGGCTTATGGTATGAAACCT
CATGGCATCTTTGAAGAAAATCATCTTTTTGAGATTGGAAATATAACCCAAGTTCATACTACACTAGTAACTTTTGCAAG
TCTGGCTTTAAAAAGAGGATTCAATGCAACTATTGACATTGGTGTCAAATATGCAGAAAAGCAAGGAAGGTGCTTTGATG
TAGGAACGCTGAAAGTAGGACAAAGTGTAATTGACTTGCAAATGGGAATCAACAAATGTGGCAGCCAGGCAAGAGTGACT
GCCTATGATTCTAGGAGGCATCTTTATGATGCTCAAATGCAAACTGACACGCATTTTGACAAGACAACAATTAGTCTGCA
GAAGGGTACTAACAAAGGAGCCTGTCAGGCTTGAACGTAAGCACCAGATACCAGAAGAGACATCTATGATCCGAAGTTAA
CATTACAGCCAGTGGACAACTCTGCAATTTCACTACAGATGGATAGCAACAAAGTTGCTTCCCAAAAAGGAATGAGTGTT
TATGGGCTTTGACAACAAGCATATGATCCCAAATATTGTGCTGCTCCAACAGAACTTGTAATATATAATGGAAGACAAGA
AATAGGAACAAATGGGTCTGAAATCAGTGATAACAATTATCAGGCAGAATGTCGAGATGAACATCATGCAGACTACCAAT
ATGACTATCCAAGAGATTATGAGTATAGCGACCAGGTCACTGATTAT

ORF - retro_meug_2020 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 74.84 %
Parental protein coverage: 84.01 %
Number of stop codons detected: 5
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalIASKYDHQAEEDLRNWIEEVTGLSIGTNFQLGLKDGIILCELINKLQPGSVKKVNESSLNWPQLENIGNF
I.S.YDHQAEE.L...IE.V..L.I.TNFQL.L.DGIILCE.IN.LQP.SVKKVNESSLNWPQLENI.NF
RetrocopyISS*YDHQAEEYLPK*IE-VAFLTIETNFQLDLQDGIILCEFINNLQPASVKKVNESSLNWPQLENICNF
ParentalIKAIQAYGMKPHDIFEANDLFENGNMTQVQTTLVALAGLAKTKGFHTTIDIGVKYAEKQARRFDEGKLKA
.KA.QAYGMKPH.IFE.N.LFE.GN.TQV.TTLV..A.LA...GF..TIDIGVKYAEKQ.R.FD.G.LK.
RetrocopyVKAVQAYGMKPHGIFEENHLFEIGNITQVHTTLVTFASLALKRGFNATIDIGVKYAEKQGRCFDVGTLKV
ParentalGQSVIGLQMGTNKCASQAGMTAYGTRRHLYDPKMQTDKPFDQTTISLQMGTNKGASQAGMLAPGTRRDIY
GQSVI.LQMG.NKC.SQA..TAY..RRHLYD..MQTD..FD.TTISLQ.GTNKGA.QA...AP.TRRDIY
RetrocopyGQSVIDLQMGINKCGSQARVTAYDSRRHLYDAQMQTDTHFDKTTISLQKGTNKGACQA*T*APDTRRDIY
ParentalDQKLTLQPVDNSTISLQMGTNKVASQKGMSVYGLGRQVYDPKYCAAPTEPVIHNGSQGTGTNGSEISDND
D.KLTLQPVDNS.ISLQM..NKVASQKGMSVYGL..Q.YDPKYCAAPTE.VI.NG.Q..GTNGSEISDN.
RetrocopyDPKLTLQPVDNSAISLQMDSNKVASQKGMSVYGL*QQAYDPKYCAAPTELVIYNGRQEIGTNGSEISDNN
ParentalYQAEYPDDYHVEYQDDYPRDYEYSDQGIDY
YQAE..D..H..YQ.DYPRDYEYSDQ..DY
RetrocopyYQAECRDEHHADYQYDYPRDYEYSDQVTDY

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_2020 retrocopy.

TSS - click to see more details

Macropus eugenii was not studied using FANTOM5 data.

Lab - click to see more details

retro_meug_2020 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 54 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000167071 retrocopy
retro_amel_1412,
Bos taurus ENSBTAG000000203451 retrocopy
retro_btau_1211,
Callithrix jacchus ENSCJAG000000181283 retrocopies
retro_cjac_1331, retro_cjac_533, retro_cjac_861,
Dasypus novemcinctus ENSDNOG000000128833 retrocopies
retro_dnov_223, retro_dnov_403, retro_dnov_815,
Equus caballus ENSECAG000000201881 retrocopy
retro_ecab_655,
Echinops telfairi ENSETEG000000100951 retrocopy
retro_etel_638,
Homo sapiens ENSG000001175191 retrocopy
retro_hsap_3419,
Gorilla gorilla ENSGGOG000000138701 retrocopy
retro_ggor_2312,
Macropus eugenii ENSMEUG00000002921 2 retrocopies
retro_meug_2020 , retro_meug_42,
Macropus eugenii ENSMEUG000000065739 retrocopies
retro_meug_1092, retro_meug_1242, retro_meug_128, retro_meug_1442, retro_meug_1998, retro_meug_309, retro_meug_483, retro_meug_690, retro_meug_880,
Macaca mulatta ENSMMUG000000016901 retrocopy
retro_mmul_1747,
Monodelphis domestica ENSMODG000000043261 retrocopy
retro_mdom_442,
Mustela putorius furoENSMPUG000000033321 retrocopy
retro_mputfur_896,
Mus musculus ENSMUSG000000539312 retrocopies
retro_mmus_1052, retro_mmus_2544,
Nomascus leucogenys ENSNLEG000000112075 retrocopies
retro_nleu_122, retro_nleu_1342, retro_nleu_2698, retro_nleu_480, retro_nleu_668,
Pan troglodytes ENSPTRG0000000097915 retrocopies
retro_ptro_1061, retro_ptro_1149, retro_ptro_1247, retro_ptro_1447, retro_ptro_1505, retro_ptro_1554, retro_ptro_1871, retro_ptro_215, retro_ptro_2323, retro_ptro_2377, retro_ptro_2831, retro_ptro_2894, retro_ptro_3007, retro_ptro_483, retro_ptro_653,
Sorex araneus ENSSARG000000128741 retrocopy
retro_sara_582,
Sarcophilus harrisii ENSSHAG000000026701 retrocopy
retro_shar_567,
Tarsius syrichta ENSTSYG000000107492 retrocopies
retro_tsyr_1458, retro_tsyr_1907,
Vicugna pacos ENSVPAG000000048892 retrocopies
retro_vpac_190, retro_vpac_449,


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