RetrogeneDB ID:

retro_ttru_24

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:scaffold_100893:28353..29472(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSTTRG00000013441
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:TRAM1
Ensembl ID:ENSTTRG00000000328
Aliases:None
Description:translocation associated membrane protein 1 [Source:HGNC Symbol;Acc:20568]


Retrocopy-Parental alignment summary:






>retro_ttru_24
ATGACGTTTCGTAAGAAGGGCTCCAAGAACCCCCCAGTCCTGAGCCAGGAATTCATCCTGCAGAATCATGCGGACCTTGT
CGCCTGTGTGGGGATGTTCTTCGTGCTGGGGCTCATGTTCGAGGGAACAGCAGAAGTGTCGATCGTTTTTATTACTCTCC
AGCACGGTGTTACCTTCCCTGCCGAAGAAGCAGAAGAAAAAGCCACAGCACCTAAGTTCCTTTATCATTATGGTGCCAAA
GATTTGGCCACAGTGTTCTTCTACATGCTGGTGGCAATCATCATTCACGCCACTATTCAAGAGTATGTCTTGGATAGAAT
TAACAGGCGAATGCAGTTCCCCAAACCGAAACAAAGCAAATTTAACGAATCTGGTCAGTTTAGTGTATTCTTCCTTGTCT
CTTGTATTTGGGGCACATTCATTCTACACTCTGAAAACTGCCTGTCAGACCTGACTGTCTTATGGAGGGCTCATCCCAAT
AACATGATGACATTTCAGATGAAGTTTTTCTATATCTCACAGTTGGCTTACTGGTTTCACGCCTTTCCTGAACTCTACTT
CCAGAGAATCAAACCTCAAGATCTCTCCCAGCAAGTTGTCTACGTTGGTCTTCACCTCTTTCACATTGCGGGAGCTTACC
TCTTGTACTTGAATCACCTGGGACTTCTTCTTTTGATGATGCATTATTTTGTGGAATTCCTTTCCCACTTTTGCGACCTG
TTTTATTTTAGCGATGAAAAGTACCAGAAAGAGTTTTCTCTGTGGGCCATTGTGTTTATTTTGGGTAGACTCGTGACTTT
AATTGTTTCTGTGATCACTGTTGGTTTTCACCTGGCTGGAGGGCAGAATGGGAATTCGGACGGCACTACCGAAGATGTGA
ACGTGTTGGCAGCGAAAATTGCTGTTCTGTCATCCAGTTGCACTATCCAAGCATACATAACATGGAATTTATTTAATGTT
CAGCTTCAGAGGTGGATGGAAGAAGATGCTCCTCTTCAGGCCCCAAGTGTGAAGAAGAAACGGACTAAGGGCAGGTTTTC
TAGAAAAGGAACAGAAAATGGTGTGGCAACTTCAAATAGAGTAGACTCTCCCCATATGAGGAAAGAAAAATCTTCATAA

ORF - retro_ttru_24 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 68.66 %
Parental protein coverage: 99.7 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalTAKASIIFVTLQYNVTLPA--TEEQATESAFLYYYGIKDLATVFFYMLVAIIIHAVIQEYVLDKINRRMH
TA..SI.F.TLQ..VT.PA...EE.AT...FLY.YG.KDLATVFFYMLVAIIIHA.IQEYVLD.INRRM.
RetrocopyTAEVSIVFITLQHGVTFPAEEAEEKATAPKFLYHYGAKDLATVFFYMLVAIIIHATIQEYVLDRINRRMQ
ParentalFSKTKHSKFNESGQLSAFYLFSCVWGTFILISENYISDPTILWRAYPHNLMTFQMKFFYISQLAYWFHAF
F.K.K.SKFNESGQ.S.F.L.SC.WGTFIL.SEN..SD.T.LWRA.P.N.MTFQMKFFYISQLAYWFHAF
RetrocopyFPKPKQSKFNESGQFSVFFLVSCIWGTFILHSENCLSDLTVLWRAHPNNMMTFQMKFFYISQLAYWFHAF
ParentalPELYFQKTKKEDIPRQLVYIGLYLFHIAGAYLLNLNHLGLVLLVLHYFVEFLFHISRLFYFSDEKYQKGF
PELYFQ..K..D...Q.VY.GL.LFHIAGAYLL.LNHLGL.LL..HYFVEFL.H...LFYFSDEKYQK.F
RetrocopyPELYFQRIKPQDLSQQVVYVGLHLFHIAGAYLLYLNHLGLLLLMMHYFVEFLSHFCDLFYFSDEKYQKEF
ParentalSLWAVLFVLGRLLTLILSVLTVGFGLARAENQKLDFSTGNFNVLAVRIAVLASICITQAFMMWKFINFQL
SLWA..F.LGRL.TLI.SV.TVGF.LA...N...D..T...NVLA..IAVL.S.C..QA...W...N.QL
RetrocopySLWAIVFILGRLVTLIVSVITVGFHLAGGQNGNSDGTTEDVNVLAAKIAVLSSSCTIQAYITWNLFNVQL
ParentalRRW-REHSTFQAPTVKKKPTVTKGRSSRKGTENGVNGTVTSNGADSPRNRKEKSS
.RW..E....QAP.VKKK...TKGR.SRKGTENGV....TSN..DSP..RKEKSS
RetrocopyQRWMEEDAPLQAPSVKKKR--TKGRFSRKGTENGV---ATSNRVDSPHMRKEKSS

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_24 retrocopy.

TSS - click to see more details

Tursiops truncatus was not studied using FANTOM5 data.

Lab - click to see more details

retro_ttru_24 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 25 parental genes, and 26 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000063251 retrocopy
retro_amel_78,
Bos taurus ENSBTAG000000075621 retrocopy
retro_btau_24,
Canis familiaris ENSCAFG000000078661 retrocopy
retro_cfam_15,
Callithrix jacchus ENSCJAG000000078931 retrocopy
retro_cjac_168,
Dasypus novemcinctus ENSDNOG000000092962 retrocopies
retro_dnov_27, retro_dnov_906,
Dipodomys ordii ENSDORG000000019011 retrocopy
retro_dord_27,
Equus caballus ENSECAG000000183781 retrocopy
retro_ecab_506,
Echinops telfairi ENSETEG000000184471 retrocopy
retro_etel_674,
Felis catus ENSFCAG000000287751 retrocopy
retro_fcat_136,
Homo sapiens ENSG000000671671 retrocopy
retro_hsap_51,
Loxodonta africana ENSLAFG000000116251 retrocopy
retro_lafr_9,
Macaca mulatta ENSMMUG000000015161 retrocopy
retro_mmul_235,
Monodelphis domestica ENSMODG000000073161 retrocopy
retro_mdom_308,
Mustela putorius furoENSMPUG000000106161 retrocopy
retro_mputfur_558,
Mus musculus ENSMUSG000000259351 retrocopy
retro_mmus_117,
Nomascus leucogenys ENSNLEG000000113761 retrocopy
retro_nleu_73,
Oryctolagus cuniculus ENSOCUG000000087341 retrocopy
retro_ocun_52,
Otolemur garnettii ENSOGAG000000063791 retrocopy
retro_ogar_2932,
Pongo abelii ENSPPYG000000186601 retrocopy
retro_pabe_169,
Pan troglodytes ENSPTRG000000203341 retrocopy
retro_ptro_2081,
Rattus norvegicus ENSRNOG000000078921 retrocopy
retro_rnor_287,
Sus scrofa ENSSSCG000000061931 retrocopy
retro_sscr_980,
Ictidomys tridecemlineatus ENSSTOG000000055371 retrocopy
retro_itri_38,
Tarsius syrichta ENSTSYG000000138871 retrocopy
retro_tsyr_24,
Tursiops truncatus ENSTTRG00000000328 1 retrocopy
retro_ttru_24 ,


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