RetrogeneDB ID:

retro_ttru_366

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:GeneScaffold_2012:171756..172699(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RIMKLB
Ensembl ID:ENSTTRG00000000699
Aliases:None
Description:ribosomal modification protein rimK-like family member B [Source:HGNC Symbol;Acc:29228]


Retrocopy-Parental alignment summary:






>retro_ttru_366
ATGTGTAGCTCTGTGGCTGCCAAGTTGTGGTTTTTGACAGATCGTCAAATCAGAGAAGACTATCCCCCAAAAGAGATCTT
ACGAGCATTAAAGGCCAAATGTTGTGAGGAGGAACTGGACTTTAGGGCTGTGGTGATAGATGAGGTGGTGCTAACAATCG
AGCAAGGAAACCTGGGTCTTTGTATCGATGGAGAACTAATTACTGCCTGTCCTCAGGTGGTGGTAGTGACAGTACCAACC
CCTTGGGTGCAAAGTGATAGTGACGTCACTGTTTTGCGCCATCTAGAGAAGGTGGGAAGCAGGTTGATGAACTGACCTCA
AACCGTCCTGAACTGTGTTAATAAGTCTTGGATGTTTCAAGAGTTGGCAGGTCATGGTGTTCCTCTGCCAGACACTTTCT
CTTACGGTGGTCATGAAAATTTTGCTAAAATGACTGATGAAGCAGAAGTACTGGAGTTCCCAAAGGTGGTGAAGAATACA
CGGGGTCATAGAGGCAAAGCAGTTTTCTTGGCTCGCGATAAGCACCCTTTGGCTAATCTAAGCCATCTTATTCGCCATGA
AGCTCCATACCTATTTCAGAAGTATGTTAAAGAGTCTCATGGAAGGGATGTACGTGTCATTGTCGTGGGATGTCGTGTGG
TTGGCACAATGTTACGCTGTTCAACAGATGGGAGGATGCAAAGAAACTGCTCACTAGGTGGTGTCGGGATGATGTGCTCA
TTGAGTTAACAAGGGAAGCAGCTAGCTATGCAGGTGTCTAACATCCTGGGATCGGATGTGTGTAGCACTGACCTGTTGAT
GAAAGACGACAGCTCCTTCTGTGTCTGCGAGGCCAATGCAAATGTAGTTTCATTGCCTTTGATAAGCGTGTTATCTAGAT
GTAGCTGGTATCATAGCGGACTATGCCGCCTCCCTTCTGCCCTCTGGCCGCCTCACCCGGCGT

ORF - retro_ttru_366 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 89.59 %
Parental protein coverage: 81.61 %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMCSSVAAKLWFLTDRRIREDYPQKEILRALKAKCCEEELDFRAVVMDEVVLTVEQGNLGLRINGELITAY
MCSSVAAKLWFLTDR.IREDYP.KEILRALKAKCCEEELDFRAVV.DEVVLT.EQGNLGL.I.GELITA.
RetrocopyMCSSVAAKLWFLTDRQIREDYPPKEILRALKAKCCEEELDFRAVVIDEVVLTIEQGNLGLCIDGELITAC
ParentalPQVVVVRVPTPWVQSDSDITVLRHLEKMGCRLMNRPQAILNCVNKFWTFQELAGHGVPLPDTFSYGGHEN
PQVVVV.VPTPWVQSDSD.TVLRHLEK.G.RLMN.PQ..LNCVNK.W.FQELAGHGVPLPDTFSYGGHEN
RetrocopyPQVVVVTVPTPWVQSDSDVTVLRHLEKVGSRLMN*PQTVLNCVNKSWMFQELAGHGVPLPDTFSYGGHEN
ParentalFAKMIDEAEVLEFPMVVKNTRGHRGKAVFLARDKHHLADLSHLIRHEAPYLFQKYVKESHGRDVRVIVVG
FAKM.DEAEVLEFP.VVKNTRGHRGKAVFLARDKH.LA.LSHLIRHEAPYLFQKYVKESHGRDVRVIVVG
RetrocopyFAKMTDEAEVLEFPKVVKNTRGHRGKAVFLARDKHPLANLSHLIRHEAPYLFQKYVKESHGRDVRVIVVG
ParentalGRVVGTMLRCSTDGRMQSNCSLGGVGMMCSLSEQGKQLAIQVSNILGMDVCGIDLLTKDDGSFCVCEANA
.RVVGTMLRCSTDGRMQ.NCSLGGVGMMCSLS.QGKQLA.QVSNILG.DVC..DLL.KDD.SFCVCEANA
RetrocopyCRVVGTMLRCSTDGRMQRNCSLGGVGMMCSLS*QGKQLAMQVSNILGSDVCSTDLLMKDDSSFCVCEANA
ParentalNV-GFIAFDK-ACNLDVAGIIADYAASLLPSGRLTRR
NV..FIAFDK.AC.LDVAGIIADYAASLLPSGRLTRR
RetrocopyNV<SFIAFDK<ACYLDVAGIIADYAASLLPSGRLTRR

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






Tursiops truncatus was not studied using RNA-Seq expression data.
Tursiops truncatus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ttru_366 retrocopy.
Tursiops truncatus was not studied using FANTOM5 data.
retro_ttru_366 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 4 parental genes, and 6 retrocopies.

Species Parental gene accession Retrocopies number
Gorilla gorilla ENSGGOG000000003321 retrocopy
Rattus norvegicus ENSRNOG000000238141 retrocopy
Tursiops truncatus ENSTTRG00000000699 3 retrocopies
retro_ttru_1672, retro_ttru_366 , retro_ttru_460,
Vicugna pacos ENSVPAG000000039541 retrocopy



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