RetrogeneDB ID:

retro_ttru_848

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:GeneScaffold_3636:547000..547666(+)
Located in intron of:ENSTTRG00000001700
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:IDH3G
Ensembl ID:ENSTTRG00000011728
Aliases:None
Description:isocitrate dehydrogenase 3 (NAD+) gamma [Source:HGNC Symbol;Acc:5386]


Retrocopy-Parental alignment summary:






>retro_ttru_848
GTTCGGGAAAGCACAGAGGGTGAATACAGCAACCTGGAGCATGAGAGTGTGAAAGGAGTGATAGAGGGCCTTAAAGATCA
TTCCTAAGGCCAAGCTTTTGCATGTTGCTGAATATGATTTCCAGCTGGCCCAGCAGATGGGATGCGAAAAAGTGACGGCT
GTGCACAAGGCCAACATCATGAACTGGGAGATGGTCTCTTCCTCCAGTGCTGTAGGGAGGTGGCATCCTGCTATCCTCAG
CTCATTTTTGAGGGCATGATTGTGGATAACACCACCATGCAGCTGGTATCCTGGCCCCAGCAGTCTGATGTCATGGTGAT
GCCCAGTCTTTATGGCAACATTGTTAATAACGTCTGCACAGAGTTGGTTGGGGGAGCAGGCCTTGTGCCTAGTGCCAACT
ATGGCCACATATATGCGGTGTTTGAAATGGCCTCAAGGCAATCAGGCAAGACTATAACCAATAAAAATGTGGCCAACCCT
ACTGCCATGCTGCTGGCAAGTTGTATCATTCTGGATTACCTCAAGTTCCATTCCTCTGCCACCTCCATTCGTATTGCAGT
CTTGGCATCCATGGAGAACAAAGACATCCAAACTCCAGACATTGGAGGCCAGGGTACCACATCGGATGTCATTCAGAATA
TCATAGATGACATCAGTGTTGCCAAT

ORF - retro_ttru_848 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 71.43 %
Parental protein coverage: 56.63 %
Number of stop codons detected: 0
Number of frameshifts detected: 2


Retrocopy - Parental Gene Alignment:

ParentalVRENTEGEYSSLEHESVAGVVE-SLKIITEARSLRIAEYAFTLARESGRKKVTAVHKANIM-KLGDGLFL
VRE.TEGEYS.LEHESV.GV.E..LKII..A..L..AEY.F.LA...G..KVTAVHKANIM..LGDGLFL
RetrocopyVRESTEGEYSNLEHESVKGVIE>ALKIIPKAKLLHVAEYDFQLAQQMGCEKVTAVHKANIM<ELGDGLFL
ParentalQCCKAVAARYPQITFENMIVDNTTMQLVSRPQQFDVMVMPNLYGNIVNNVCAGLVGGPGLVAGANYGHVY
QCC..VA..YPQ..FE.MIVDNTTMQLVS.PQQ.DVMVMP.LYGNIVNNVC..LVGG.GLV..ANYGH.Y
RetrocopyQCCREVASCYPQLIFEGMIVDNTTMQLVSWPQQSDVMVMPSLYGNIVNNVCTELVGGAGLVPSANYGHIY
ParentalAVFETATRNTGKSIANRNIANPTATLLASCMMLDHLKLHSYATSIRKAVLASMDNENMHTPDIGGQGTTS
AVFE.A.R..GK.I.N.N.ANPTA.LLASC..LD.LK.HS.ATSIR.AVLASM.N....TPDIGGQGTTS
RetrocopyAVFEMASRQSGKTITNKNVANPTAMLLASCIILDYLKFHSSATSIRIAVLASMENKDIQTPDIGGQGTTS
ParentalEAIQDIIRRIRVIN
..IQ.II..I.V.N
RetrocopyDVIQNIIDDISVAN

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






RNA-Seq - click to see more details

Tursiops truncatus was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Tursiops truncatus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_ttru_848 retrocopy.

TSS - click to see more details

Tursiops truncatus was not studied using FANTOM5 data.

Lab - click to see more details

retro_ttru_848 was not experimentally validated.

Retrocopy orthology:
Tursiops truncatus 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 18 parental genes, and 18 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000184661 retrocopy
retro_amel_1892,
Bos taurus ENSBTAG000000010591 retrocopy
retro_btau_1194,
Canis familiaris ENSCAFG000000192861 retrocopy
retro_cfam_1023,
Callithrix jacchus ENSCJAG000000111851 retrocopy
retro_cjac_1597,
Equus caballus ENSECAG000000185091 retrocopy
retro_ecab_941,
Homo sapiens ENSG000000678291 retrocopy
retro_hsap_759,
Latimeria chalumnae ENSLACG000000073651 retrocopy
retro_lcha_17,
Loxodonta africana ENSLAFG000000069041 retrocopy
retro_lafr_560,
Macropus eugenii ENSMEUG000000139341 retrocopy
retro_meug_203,
Myotis lucifugus ENSMLUG000000044571 retrocopy
retro_mluc_396,
Mustela putorius furoENSMPUG000000087811 retrocopy
retro_mputfur_644,
Mus musculus ENSMUSG000000020101 retrocopy
retro_mmus_134,
Nomascus leucogenys ENSNLEG000000135401 retrocopy
retro_nleu_394,
Otolemur garnettii ENSOGAG000000067351 retrocopy
retro_ogar_25,
Pteropus vampyrus ENSPVAG000000131631 retrocopy
retro_pvam_373,
Rattus norvegicus ENSRNOG000000372841 retrocopy
retro_rnor_209,
Sus scrofa ENSSSCG000000127831 retrocopy
retro_sscr_662,
Tursiops truncatus ENSTTRG00000011728 1 retrocopy
retro_ttru_848 ,


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