RetrogeneDB ID:

retro_shar_84

Retrocopy
location
Organism:Tasmanian devil (Sarcophilus harrisii)
Coordinates:GL856761.1:157757..158930(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSSHAG00000005427
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSSHAG00000015375
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_shar_84
CTGAACAAAATGCTCCTTGTGGTTTCTCGCATGATGGGGAGCGCCTCCCCAAAACCAGCTGGAGAAGTGCTGTTGGCAGC
CCGTAACTTTGTAAATGAAGCTTCCTTTGATATTAAGAAATGTGCCCTTCATCGCCTGGAAGAGGGCCCTCCAGTCAGTG
CGGTTCTCACTAGAGAGGAAGGACTCAAGTACTATAAGATAATGCAGACGGTCCGTAGGATGGAACTGAAAGCAGATCAG
TTGTACAAGCAAAAGGTCATCCGTGGTTTCTGCCACTTGTATGACGGTCAGGAAGCTTGTTGTGTGGGGATCGAGGCGGC
TATAAATCCTTCGGATCATGTGATTACAGCCTATAGAGCTCATGGCTTTACCTATGCCCGTGGACTTTCTGTTAGAGAAA
TTTTAGCTGAGCTAACGGGACGCAGAGGAGGCTGCGCCAAAGGAAAGGGAGGCTCAATGCACATGTACACCAAGAACTTC
TATGGAGGCAACGGTATTGTTGGAGCCCAAGTGCCAGTGGGAGCTGGGATTGCCCTGGCCTGCAAGTACAAATCAACAGA
TGAGATCTGTTTTACTCTGTACGGAGATGGTGCTGCTAATCAGGGTCAGATATTCGAAACTTACAATATGGCAGCTTTGT
GGAAACTGCCTTGTGTTTTTGTTTGTGAAAATAATCGATATGGAATGGGAACTTCGACGGAGAGAGCAGCAGCCAGCACT
GATTATTACAGAAGAGGAGACTTTATTCCAGGAATAAAAGTAGATGGTATGGATGTTCTGTGTGTCCGAGAAGCCACAAA
ATTTGTAGCTTCCTATGCCAGATCAGGAAAGGGCCCCATATTGATGGAACTACAGACATATCGTTATCATGGACACAGCA
TGAGTGATCCTGGTGTGAGTTACCGTTCTAGGGAGGAGATTAAGGAAGTGAGGAATAAGAGTGACCCTATTATGCTTCAC
AAAAATAGGATGGTCAACAGCAAACTTGCCAGTATTGAAGAATTAAAAGAAATTGATATTGAAGTAAGGAAAGAGATTGA
AGATGCTGCCCAGTTTGCTACAGCTGATCCAGAGCCACCTTTGGAAGAATTAGGTTATCATGTCTACTCTGGACAGATAT
CTTTTGATGTTCGAGGTGTGAATCAATGGATCAAGTACAAATCTGTCTGCTAA

ORF - retro_shar_84 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 85.6 %
Parental protein coverage: 99.74 %
Number of stop codons detected: 0
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalMRKMLAVVSRVLTGASQKPVGRVLLASRNFANDATFDIKKCDIHRLEEGPPTTAVLTREEGLKYYKIMQT
..KML.VVSR....AS.KP.G.VLLA.RNF.N.A.FDIKKC..HRLEEGPP..AVLTREEGLKYYKIMQT
RetrocopyLNKMLLVVSRMMGSASPKPAGEVLLAARNFVNEASFDIKKCALHRLEEGPPVSAVLTREEGLKYYKIMQT
ParentalVRRMELKADQLYKQKIIRGFCHLYDGQEACCMGLEAGINPTDHVITAYRAHGFTYTRGLPVREILAELTG
VRRMELKADQLYKQK.IRGFCHLYDGQEACC.G.EA.INP.DHVITAYRAHGFTY.RGL.VREILAELTG
RetrocopyVRRMELKADQLYKQKVIRGFCHLYDGQEACCVGIEAAINPSDHVITAYRAHGFTYARGLSVREILAELTG
ParentalRRGGCAKGKGGSMHMYAKNFYGGNGIVGAQVPLGAGIALACKYNEKDEICLTLYGDGAANQGQIFEAYNM
RRGGCAKGKGGSMHMY.KNFYGGNGIVGAQVP.GAGIALACKY...DEIC.TLYGDGAANQGQIFE.YNM
RetrocopyRRGGCAKGKGGSMHMYTKNFYGGNGIVGAQVPVGAGIALACKYKSTDEICFTLYGDGAANQGQIFETYNM
ParentalAALWKLPCIFICENNRYGMGTSVERAAASTDYYKRGDFIPGIRVDGMDVLCVREATKFAAAYCRSGKGPM
AALWKLPC.F.CENNRYGMGTS.ERAAASTDYY.RGDFIPGI.VDGMDVLCVREATKF.A.Y.RSGKGP.
RetrocopyAALWKLPCVFVCENNRYGMGTSTERAAASTDYYRRGDFIPGIKVDGMDVLCVREATKFVASYARSGKGPI
ParentalLMELQTYRYHGHSMSDPGVSYRTREEIQEVRSKSDPIMLLKDRMVNNNLASIEELKEIDVEVRKEIEDAA
LMELQTYRYHGHSMSDPGVSYR.REEI.EVR.KSDPIML.K.RMVN..LASIEELKEID.EVRKEIEDAA
RetrocopyLMELQTYRYHGHSMSDPGVSYRSREEIKEVRNKSDPIMLHKNRMVNSKLASIEELKEIDIEVRKEIEDAA
ParentalQFATADPEPPLEELGYHIYSRDPPFEVRGANQWIKYKSV
QFATADPEPPLEELGYH.YS....F.VRG.NQWIKYKSV
RetrocopyQFATADPEPPLEELGYHVYSGQISFDVRGVNQWIKYKSV

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






RNA-Seq - click to see more details

Sarcophilus harrisii was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Sarcophilus harrisii was not studied using ChIP-Seq data.

EST - click to see more details

Sarcophilus harrisii was not studied using EST data.

TSS - click to see more details

Sarcophilus harrisii was not studied using FANTOM5 data.

Lab - click to see more details

retro_shar_84 was not experimentally validated.

Retrocopy orthology:
Sarcophilus harrisii 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 25 parental genes, and 30 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000167301 retrocopy
retro_amel_400,
Bos taurus ENSBTAG000000198522 retrocopies
retro_btau_100, retro_btau_1807,
Callithrix jacchus ENSCJAG000000054962 retrocopies
retro_cjac_2414, retro_cjac_27,
Dipodomys ordii ENSDORG000000118481 retrocopy
retro_dord_35,
Equus caballus ENSECAG000000019641 retrocopy
retro_ecab_21,
Erinaceus europaeus ENSEEUG000000054851 retrocopy
retro_eeur_580,
Echinops telfairi ENSETEG000000013921 retrocopy
retro_etel_1802,
Homo sapiens ENSG000001318281 retrocopy
retro_hsap_41,
Gorilla gorilla ENSGGOG000000135741 retrocopy
retro_ggor_59,
Loxodonta africana ENSLAFG000000094261 retrocopy
retro_lafr_91,
Myotis lucifugus ENSMLUG000000129322 retrocopies
retro_mluc_2363, retro_mluc_323,
Macaca mulatta ENSMMUG000000173361 retrocopy
retro_mmul_123,
Mustela putorius furoENSMPUG000000032691 retrocopy
retro_mputfur_812,
Mus musculus ENSMUSG000000312992 retrocopies
retro_mmus_63, retro_mmus_631,
Nomascus leucogenys ENSNLEG000000098051 retrocopy
retro_nleu_74,
Oryctolagus cuniculus ENSOCUG000000147481 retrocopy
retro_ocun_264,
Procavia capensis ENSPCAG000000041961 retrocopy
retro_pcap_451,
Pongo abelii ENSPPYG000000201711 retrocopy
retro_pabe_129,
Pan troglodytes ENSPTRG000000217171 retrocopy
retro_ptro_79,
Pteropus vampyrus ENSPVAG000000054201 retrocopy
retro_pvam_1306,
Sarcophilus harrisii ENSSHAG00000015375 1 retrocopy
retro_shar_84 ,
Sus scrofa ENSSSCG000000236432 retrocopies
retro_sscr_1015, retro_sscr_281,
Ictidomys tridecemlineatus ENSSTOG000000154331 retrocopy
retro_itri_1529,
Tupaia belangeri ENSTBEG000000143131 retrocopy
retro_tbel_3327,
Tursiops truncatus ENSTTRG000000006601 retrocopy
retro_ttru_1427,


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