RetrogeneDB ID:

retro_etel_1637

Retrocopy
location
Organism:Lesser hedgehog tenrec (Echinops telfairi)
Coordinates:scaffold_284501:1001..1919(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:IGBP1
Ensembl ID:ENSETEG00000003397
Aliases:None
Description:immunoglobulin (CD79A) binding protein 1 [Source:HGNC Symbol;Acc:5461]


Retrocopy-Parental alignment summary:






>retro_etel_1637
ATGGCAGCTGCCGAAGACGAACTTCAGCGGCCACGGCTCCCTGAGCTCTTCGAAACCAGTAAGCAGTTTCTGGAGGAAGT
GGAAGTGGCGATGGAACCGACTGGTTCCTGGGTAGTCCAGGATAAGGTGCTTAAGGGACTGGACCTCCTTGAGAAGGCTG
CCAAAATGCTATCACAGCTCGACTTGTTCAGCCCAAATGAAGATTTAGAAGAGATCGCTTCCACCGACCTGAAGTACCTT
TTGGTGCCAGCATTTCAGGGAGCCCTGGCCATGAAACAAGTCAACCCCAGCAAGCGCCTCGATCACCTGCAGTGGGCCCG
AGAGCACTTCGTAAACTACTTAGCCCAGTGCCATCGCTGTCACGTTGCAAAGTTTGAGCTGCCCCAAACCAAGAGCAACT
CGGCTGAACATAACACTGCTCCTTCCTCCACGGCCTCCTCCAGCCTCTTTGTTAGGACATCTCAAAGACAGACTAAAATA
GGGAAATACAGGCAGAGGAAGGAGGTGGAGCGCAGGTTATCCGCACTCAAGTCGACTGTGGAAACTGGCCAAGCAGATGA
TGAACATGTCCGTGCCTATTATCTCCTGCAGCTTCAGAGGTGGGTTAGTATCAGTTTGGAAGAGGTTGAGAGCATTGACC
AAGAGATAAAGATCCTCAGAGAAAGAGCCTTCTCAAAAGAGACATCACCTTCTCCCGCATCTCGGCAGGACAGACCGCCG
CTGAAACCCTTCATTCTCGCTCGAGACTTGGCCCAAGCCAAGGTGTTTGGAGCTGGTTATCCGAGCCTGGCCACTGTGAC
AGTGGATGACTGGTATGAACAGCACCGGAAATACGGAGTGTTACCAGATCAGGGAATTGCCAAGATGGCATCAGAACAGG
AGGATCGAGAACAAAAGGAGGAAGAGGATGATGAAAAA

ORF - retro_etel_1637 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 74.84 %
Parental protein coverage: 90.0 %
Number of stop codons detected: 0
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalMAAAEDELLLPRLPELFETSKQFLDEVEIATEPTGSRMVQDKVLKGLDLLEKAAEMLSQLDLFSRNEDLE
MAAAEDEL..PRLPELFETSKQFL.EVE.A.EPTGS..VQDKVLKGLDLLEKAA.MLSQLDLFS.NEDLE
RetrocopyMAAAEDELQRPRLPELFETSKQFLEEVEVAMEPTGSWVVQDKVLKGLDLLEKAAKMLSQLDLFSPNEDLE
ParentalEIASTDLKYLLVPAFQGALAMKQVNPSKRLDHLQWAREHFLNYLTQCHYYHVAEFELPKPENNLAENNTA
EIASTDLKYLLVPAFQGALAMKQVNPSKRLDHLQWAREHF.NYL.QCH..HVA.FELP....N.AE.NTA
RetrocopyEIASTDLKYLLVPAFQGALAMKQVNPSKRLDHLQWAREHFVNYLAQCHRCHVAKFELPQTKSNSAEHNTA
ParentalSSSMAYPNLVVMASQRQAKIERYRQKKEIEHRLSTLKSAVESDQADDEHVREYYLLHLRMWIGISLEEIE
.SS.A...L.V..SQRQ.KI..YRQ.KE.E.RLS.LKS.VE..QADDEHVR.YYLL.L..W..ISLEE.E
RetrocopyPSSTASSSLFVRTSQRQTKIGKYRQRKEVERRLSALKSTVETGQADDEHVRAYYLLQLQRWVSISLEEVE
ParentalSIDQEIQILRERDTSRDASTSHSPHQDRPPLKPFILTRDRAQAKVFGAGYPSLATMTVNDWYDQHRKYGA
SIDQEI.ILRER..S...S.S....QDRPPLKPFIL.RD.AQAKVFGAGYPSLAT.TV.DWY.QHRKYG.
RetrocopySIDQEIKILRERAFSKETSPSPASRQDRPPLKPFILARDLAQAKVFGAGYPSLATVTVDDWYEQHRKYGV
ParentalLPDQGIAETKSAEFKNAAQQQEDQEQ
LPDQGIA...S..........ED.E.
RetrocopyLPDQGIAKMASEQEDREQKEEEDDEK

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






RNA-Seq - click to see more details

Echinops telfairi was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Echinops telfairi was not studied using ChIP-Seq data.

EST - click to see more details

Echinops telfairi was not studied using EST data.

TSS - click to see more details

Echinops telfairi was not studied using FANTOM5 data.

Lab - click to see more details

retro_etel_1637 was not experimentally validated.

Retrocopy orthology:
Echinops telfairi 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 48 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000077971 retrocopy
retro_btau_215,
Choloepus hoffmanni ENSCHOG000000136543 retrocopies
retro_chof_1523, retro_chof_2206, retro_chof_438,
Callithrix jacchus ENSCJAG000000125256 retrocopies
retro_cjac_111, retro_cjac_1225, retro_cjac_2278, retro_cjac_2968, retro_cjac_3417, retro_cjac_47,
Cavia porcellus ENSCPOG000000107971 retrocopy
retro_cpor_44,
Dasypus novemcinctus ENSDNOG000000147315 retrocopies
retro_dnov_1160, retro_dnov_2029, retro_dnov_2340, retro_dnov_2380, retro_dnov_678,
Echinops telfairi ENSETEG00000003397 1 retrocopy
retro_etel_1637 ,
Felis catus ENSFCAG000000296881 retrocopy
retro_fcat_23,
Homo sapiens ENSG000000892895 retrocopies
retro_hsap_1317, retro_hsap_1848, retro_hsap_2766, retro_hsap_2919, retro_hsap_3059,
Gorilla gorilla ENSGGOG000000277952 retrocopies
retro_ggor_112, retro_ggor_2020,
Myotis lucifugus ENSMLUG000000041791 retrocopy
retro_mluc_316,
Macaca mulatta ENSMMUG000000139292 retrocopies
retro_mmul_1545, retro_mmul_31,
Mus musculus ENSMUSG000000312211 retrocopy
retro_mmus_169,
Nomascus leucogenys ENSNLEG000000007475 retrocopies
retro_nleu_1399, retro_nleu_1653, retro_nleu_2334, retro_nleu_671, retro_nleu_828,
Otolemur garnettii ENSOGAG000000117971 retrocopy
retro_ogar_110,
Pongo abelii ENSPPYG000000204354 retrocopies
retro_pabe_1099, retro_pabe_1451, retro_pabe_2245, retro_pabe_2533,
Pan troglodytes ENSPTRG000000219905 retrocopies
retro_ptro_1233, retro_ptro_1873, retro_ptro_1973, retro_ptro_1982, retro_ptro_901,
Pteropus vampyrus ENSPVAG000000054831 retrocopy
retro_pvam_1462,
Rattus norvegicus ENSRNOG000000262671 retrocopy
retro_rnor_311,
Tarsius syrichta ENSTSYG000000062142 retrocopies
retro_tsyr_1537, retro_tsyr_2131,


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