RetrogeneDB ID:

retro_tsyr_963

Retrocopy
location
Organism:Tarsier (Tarsius syrichta)
Coordinates:scaffold_25731:10046..10613(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:CDC42
Ensembl ID:ENSTSYG00000000679
Aliases:None
Description:cell division cycle 42 [Source:HGNC Symbol;Acc:1736]


Retrocopy-Parental alignment summary:






>retro_tsyr_963
ATGCAGACAATTAAGTTTGTGGTTGTGGGCAATGGTGCTATGGGTAAAACATGCCTCCTGATATCCTACACAACAAACAA
ATTTCCATCTGAATATGTATCGACTGTTTTTTACGACTAAGCAGTCACAGTTATGATTGGTGGAGAGCCATATACTCTTG
GACCTTTTGATACTGCAGGGCAAGAGGATTATGACAGATTACCACCGCTGAGTTATCCACAAACAGGTGTATTTCGAGTC
TGTTTTTCAGTGGTCCTCCCATCTTCATTTGAACATGTGAAAGAAAAGCGGGTGCCTGAGATAACTCACCACCATCCAAA
GACTCCTTTCTTGCTTGTCGGAATCCAAATTGATCTCAGAGATGATCCCTCTACTATTGAAAAACTTGCCAAGAACAAAC
AGAAGCCTATCACTCTAGAGATTGCTGAAAAGCTGACCCATGACCTAAAGGCTGTCAAGTATGTGGAGTGTACTGCACTC
ACACAGAAAGGCCTAAAGAATGTATTGGATGGAGCAATATGGGCTGCCCTGGAGCCTCCGAACCAAAGAGCCACAGGTGT
ATACTGC

ORF - retro_tsyr_963 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 82.54 %
Parental protein coverage: 98.95 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMQTIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPL
MQTIK.VVVG.GA.GKTCLLISYTTNKFPSEYV.TVF...AVTVMIGGEPYTLG.FDTAGQEDYDRL.PL
RetrocopyMQTIKFVVVGNGAMGKTCLLISYTTNKFPSEYVSTVFYD*AVTVMIGGEPYTLGPFDTAGQEDYDRLPPL
ParentalSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPE
SYPQT.VF.VCFSVV.PSSFE.VKEK.VPEITHH.PKTPFLLVG.QIDLRDDPSTIEKLAKNKQKPIT.E
RetrocopySYPQTGVFRVCFSVVLPSSFEHVKEKRVPEITHHHPKTPFLLVGIQIDLRDDPSTIEKLAKNKQKPITLE
ParentalTAEKLARDLKAVKYVECSALTQRGLKNVFDEAILAALEPPETQPKRKCC
.AEKL..DLKAVKYVEC.ALTQ.GLKNV.D.AI.AALEPP........C
RetrocopyIAEKLTHDLKAVKYVECTALTQKGLKNVLDGAIWAALEPPNQRATGVYC

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_963 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 18 parental genes, and 70 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000147075 retrocopies
retro_cfam_1587, retro_cfam_1970, retro_cfam_2189, retro_cfam_88, retro_cfam_89,
Choloepus hoffmanni ENSCHOG0000000530610 retrocopies
retro_chof_103, retro_chof_1044, retro_chof_1195, retro_chof_1853, retro_chof_2055, retro_chof_2105, retro_chof_2331, retro_chof_2407, retro_chof_50, retro_chof_800,
Callithrix jacchus ENSCJAG000000059126 retrocopies
retro_cjac_1275, retro_cjac_1808, retro_cjac_1826, retro_cjac_2251, retro_cjac_751, retro_cjac_911,
Cavia porcellus ENSCPOG000000065434 retrocopies
retro_cpor_1168, retro_cpor_286, retro_cpor_33, retro_cpor_887,
Dipodomys ordii ENSDORG000000103743 retrocopies
retro_dord_17, retro_dord_464, retro_dord_552,
Equus caballus ENSECAG000000191801 retrocopy
retro_ecab_11,
Echinops telfairi ENSETEG000000044431 retrocopy
retro_etel_2010,
Felis catus ENSFCAG000000048534 retrocopies
retro_fcat_129, retro_fcat_1421, retro_fcat_1579, retro_fcat_896,
Macaca mulatta ENSMMUG000000220098 retrocopies
retro_mmul_1449, retro_mmul_1612, retro_mmul_1685, retro_mmul_1900, retro_mmul_1932, retro_mmul_24, retro_mmul_349, retro_mmul_598,
Monodelphis domestica ENSMODG000000160783 retrocopies
retro_mdom_18, retro_mdom_181, retro_mdom_537,
Oryctolagus cuniculus ENSOCUG000000099861 retrocopy
retro_ocun_60,
Otolemur garnettii ENSOGAG000000142611 retrocopy
retro_ogar_131,
Sorex araneus ENSSARG000000051843 retrocopies
retro_sara_10, retro_sara_220, retro_sara_3,
Ictidomys tridecemlineatus ENSSTOG000000008054 retrocopies
retro_itri_1158, retro_itri_1602, retro_itri_1615, retro_itri_431,
Tarsius syrichta ENSTSYG00000000679 11 retrocopies
retro_tsyr_1575, retro_tsyr_1597, retro_tsyr_1854, retro_tsyr_1976, retro_tsyr_2048, retro_tsyr_2098, retro_tsyr_352, retro_tsyr_387, retro_tsyr_539, retro_tsyr_66, retro_tsyr_963 ,
Tarsius syrichta ENSTSYG000000016182 retrocopies
retro_tsyr_2027, retro_tsyr_2068,
Tarsius syrichta ENSTSYG000000028371 retrocopy
retro_tsyr_1609,
Tursiops truncatus ENSTTRG000000057082 retrocopies
retro_ttru_118, retro_ttru_54,


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