RetrogeneDB ID:

retro_tsyr_405

Retrocopy
location
Organism:Tarsier (Tarsius syrichta)
Coordinates:scaffold_111287:4143..4977(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:DRG1
Ensembl ID:ENSTSYG00000010160
Aliases:None
Description:developmentally regulated GTP binding protein 1 [Source:HGNC Symbol;Acc:3029]


Retrocopy-Parental alignment summary:






>retro_tsyr_405
TTTGATGTGGCCAAGACAGGTGATGCTCGAATTGGGTTTGTTGGTTTTCCATCTGTGGGGAAGTCAACACTGCTCAGTAA
CCTGGCAGGAGTATATTCCGAGGTGGCAGCCTATGAATTCACTGCTCTGACGACTGTGCCTGGTGTCATCAGATACAAAG
GGGCCAAGATTCAGCTCCTAGATCTCCCAGGTATCATTGAAGTTGCCAAGGATGGGAAAGGTAGAGGCCGTCAAGTCATT
GCAGTGGCCCGAACTTGTAACTTGATCCTGATTGTCCTGGATGTTCTGAAACCGTTGGGACATAAGAAGATAATTGAAAA
TGAACTGGAAGGCTTCGGCATTCGCTTGAACAGCAAACCCCCTAACATTGGCTTTAAGAAGAAGGATAAGGGAGGCATTA
ATCTCACAGCCACTTGCCCTCAGAGTGAGCTGGATGCAGAAACTGTGAAGAGCATTCTGGCTGAATACAAAATTCATAAT
GCTGATGTGACTCTGCGTAGTGATGCCACAGCTGATGACCTTATTGATGTGGTGGAAGGAAACAGAGTTTATATCCCCTG
TATTTACGTGTTAAATAAGATTGACCAAATCTCCATTGAGGAATTGGATATCATATACAAGGTGCCTCACTGTGTCCCCA
TCTCTGCCCATCACCGTTGGAATTTTGATGACCTATTGGAAAAGATCTGGGACTATCTGAAATTAGTGAGAATTTACACC
AAACCCAAAGGCCAGTTGCCAGATTACACATCCCCAGTGGTGCTGCCTTACTCCAGGACCACGGTGGAGGATTTCTGCAT
GAAGATCCACAAAAATCTTATCAAAGAATTTAAA

ORF - retro_tsyr_405 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 99.28 %
Parental protein coverage: 75.75 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalFDVAKTGDARIGFVGFPSVGKSTLLSNLAGVYSEVAAYEFTTLTTVPGVIRYKGAKIQLLDLPGIIEGAK
FDVAKTGDARIGFVGFPSVGKSTLLSNLAGVYSEVAAYEFT.LTTVPGVIRYKGAKIQLLDLPGIIE.AK
RetrocopyFDVAKTGDARIGFVGFPSVGKSTLLSNLAGVYSEVAAYEFTALTTVPGVIRYKGAKIQLLDLPGIIEVAK
ParentalDGKGRGRQVIAVARTCNLILIVLDVLKPLGHKKIIENELEGFGIRLNSKPPNIGFKKKDKGGINLTATCP
DGKGRGRQVIAVARTCNLILIVLDVLKPLGHKKIIENELEGFGIRLNSKPPNIGFKKKDKGGINLTATCP
RetrocopyDGKGRGRQVIAVARTCNLILIVLDVLKPLGHKKIIENELEGFGIRLNSKPPNIGFKKKDKGGINLTATCP
ParentalQSELDAETVKSILAEYKIHNADVTLRSDATADDLIDVVEGNRVYIPCIYVLNKIDQISIEELDIIYKVPH
QSELDAETVKSILAEYKIHNADVTLRSDATADDLIDVVEGNRVYIPCIYVLNKIDQISIEELDIIYKVPH
RetrocopyQSELDAETVKSILAEYKIHNADVTLRSDATADDLIDVVEGNRVYIPCIYVLNKIDQISIEELDIIYKVPH
ParentalCVPISAHHRWNFDDLLEKIWDYLKLVRIYTKPKGQLPDYTSPVVLPYSRTTVEDFCMKIHKNLIKEFK
CVPISAHHRWNFDDLLEKIWDYLKLVRIYTKPKGQLPDYTSPVVLPYSRTTVEDFCMKIHKNLIKEFK
RetrocopyCVPISAHHRWNFDDLLEKIWDYLKLVRIYTKPKGQLPDYTSPVVLPYSRTTVEDFCMKIHKNLIKEFK

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






RNA-Seq - click to see more details

Tarsius syrichta was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Tarsius syrichta was not studied using ChIP-Seq data.

EST - click to see more details

Tarsius syrichta was not studied using EST data.

TSS - click to see more details

Tarsius syrichta was not studied using FANTOM5 data.

Lab - click to see more details

retro_tsyr_405 was not experimentally validated.

Retrocopy orthology:
Tarsius syrichta 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 17 parental genes, and 27 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000070401 retrocopy
retro_amel_1448,
Canis familiaris ENSCAFG000000326016 retrocopies
retro_cfam_1535, retro_cfam_1807, retro_cfam_382, retro_cfam_415, retro_cfam_453, retro_cfam_607,
Ciona intestinalis ENSCING000000033051 retrocopy
retro_cint_1,
Callithrix jacchus ENSCJAG000000110094 retrocopies
retro_cjac_1104, retro_cjac_2246, retro_cjac_2606, retro_cjac_855,
Cavia porcellus ENSCPOG000000107911 retrocopy
retro_cpor_1401,
Ciona savignyi ENSCSAVG000000065031 retrocopy
retro_csav_10,
Dasypus novemcinctus ENSDNOG000000013121 retrocopy
retro_dnov_531,
Homo sapiens ENSG000001857211 retrocopy
retro_hsap_2231,
Gorilla gorilla ENSGGOG000000111851 retrocopy
retro_ggor_1665,
Myotis lucifugus ENSMLUG000000070331 retrocopy
retro_mluc_1447,
Macaca mulatta ENSMMUG000000190991 retrocopy
retro_mmul_999,
Mustela putorius furoENSMPUG000000128101 retrocopy
retro_mputfur_339,
Mus musculus ENSMUSG000000204571 retrocopy
retro_mmus_2366,
Nomascus leucogenys ENSNLEG000000270011 retrocopy
retro_nleu_2627,
Pan troglodytes ENSPTRG000000142721 retrocopy
retro_ptro_1578,
Ictidomys tridecemlineatus ENSSTOG000000141871 retrocopy
retro_itri_460,
Tarsius syrichta ENSTSYG00000010160 3 retrocopies
retro_tsyr_1374, retro_tsyr_1918, retro_tsyr_405 ,


Copyright © RetrogeneDB 2014-2017