RetrogeneDB ID:

retro_tsyr_557

Retrocopy
location
Organism:Tarsier (Tarsius syrichta)
Coordinates:scaffold_1396:71134..72034(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ARPC2
Ensembl ID:ENSTSYG00000001037
Aliases:None
Description:actin related protein 2/3 complex, subunit 2, 34kDa [Source:HGNC Symbol;Acc:705]


Retrocopy-Parental alignment summary:






>retro_tsyr_557
ATGATCCTGCTGGAGGTGAACAACCTCATCATCGAGGAGATGCTCACGCTCAAGTTCGAGAACGCGGCCGCTGGAAACAA
ACCAGAAGCAGTAGAAGTAACATTTGCAGATTTTGATGGTGTCCTCTATCATATTTCAAATCCTAATGGAGATAAAACAA
AAGTGATGGTCAGTATTTCTTTGAAATTCTACAAGGAACTTCAGGCACATGGTGCTGATGAGTTTTTAAAGAGGATGTAC
AGGAACTTCTCGTTAAATCCAGAATCAGGATACAATGTCTCTTTGCTATACGACCTTGAAAATCTGTCTGCATCTACAGA
TTCCATTGTACATCAAGCTGGAATGTCCAAGCGAAATTGTTTTGCCTCTGTCTTGGAAAAATACTTCCAATTCCAAGAAG
AGGGCAAGGAAGGCGAGAACAGGGCAGTTATCCATTGTAGGGATGATGAGACCATGTATGTTGAGTCTATAAAGGACAGA
GTCACAGTAGGCTGATGCACAGTGTTTACGGAAGACGATGGTGTGGTCACTGGAAAGGTGTTCATGCAGGAGTTCAAAGA
AGGACGCAGAGCCAGCCCCACAGCCCCACAGCTCCTCTTTAGCCACAGGGAACCTCCTCTGGAGCTGAAAGACACGGACG
CCGCTGTGGGCGACAACATCGGCTACATGACCTTCGTGCTGTTCGCTGGCCAGACCAATGCCAGTGCTGGAGACAACACC
ATCAACCTGATCCGCACGTTCCGAGACTACCTGCACTACCACATCAAGTGCTCTAAGGCCCATATCCACACACGTATGAG
GGCAAAAACATCTGACTTTCTCAAGGTGCTGAACCGCGCACGCCCAGATGCAGAGAAAAAAGAAATGAAAACAATCACGG
GGAAGACATTTTCATCCCGC

ORF - retro_tsyr_557 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 84.33 %
Parental protein coverage: 100.0 %
Number of stop codons detected: 1
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalMILLEVNNRIIEETLALKFENAAAGNKPEAVEVTFADFDGVLYHISNPNGDKTKVMVSISLKFYKELQAH
MILLEVNN.IIEE.L.LKFENAAAGNKPEAVEVTFADFDGVLYHISNPNGDKTKVMVSISLKFYKELQAH
RetrocopyMILLEVNNLIIEEMLTLKFENAAAGNKPEAVEVTFADFDGVLYHISNPNGDKTKVMVSISLKFYKELQAH
ParentalGADELLKRVYGSFLVNPESGYNVSLLYDLENLPASKDSIVHQAGMLKRNCFASVFEKYFQFQEEGKEGEN
GADE.LKR.Y..F..NPESGYNVSLLYDLENL.AS.DSIVHQAGM.KRNCFASV.EKYFQFQEEGKEGEN
RetrocopyGADEFLKRMYRNFSLNPESGYNVSLLYDLENLSASTDSIVHQAGMSKRNCFASVLEKYFQFQEEGKEGEN
ParentalRAVIHYRDDETMYVESKKDRVTVVFSTVFKDDDDVVIGKVFMQEFKEGRRASHTAPQVLFSHREPPLELK
RAVIH.RDDETMYVES.KDRVTV...TVF..DD.VV.GKVFMQEFKEGRR........LFSHREPPLELK
RetrocopyRAVIHCRDDETMYVESIKDRVTVG*CTVFTEDDGVVTGKVFMQEFKEGRRXXXXXXXXLFSHREPPLELK
ParentalDTDAAVGDNIGYITFVLFPRHTNASARDNTINLIHTFRDYLHYHIKCSKAYIHTRMRAKTSDFLKVLNRA
DTDAAVGDNIGY.TFVLF...TNASA.DNTINLI.TFRDYLHYHIKCSKA.IHTRMRAKTSDFLKVLNRA
RetrocopyDTDAAVGDNIGYMTFVLFAGQTNASAGDNTINLIRTFRDYLHYHIKCSKAHIHTRMRAKTSDFLKVLNRA
ParentalRPVXXXXXXXXXTGKTFSSR
RP..........TGKTFSSR
RetrocopyRPDAEKKEMKTITGKTFSSR

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_557 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 14 parental genes, and 19 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000031972 retrocopies
retro_amel_1771, retro_amel_1846,
Canis familiaris ENSCAFG000000146181 retrocopy
retro_cfam_513,
Choloepus hoffmanni ENSCHOG000000105645 retrocopies
retro_chof_1845, retro_chof_2103, retro_chof_2226, retro_chof_2227, retro_chof_473,
Dasypus novemcinctus ENSDNOG000000060371 retrocopy
retro_dnov_5,
Dipodomys ordii ENSDORG000000161071 retrocopy
retro_dord_624,
Felis catus ENSFCAG000000023701 retrocopy
retro_fcat_732,
Loxodonta africana ENSLAFG000000074141 retrocopy
retro_lafr_593,
Myotis lucifugus ENSMLUG000000041611 retrocopy
retro_mluc_390,
Mustela putorius furoENSMPUG000000165121 retrocopy
retro_mputfur_1294,
Mus musculus ENSMUSG000000063041 retrocopy
retro_mmus_1556,
Oryctolagus cuniculus ENSOCUG000000055161 retrocopy
retro_ocun_483,
Pteropus vampyrus ENSPVAG000000171331 retrocopy
retro_pvam_1216,
Sorex araneus ENSSARG000000033261 retrocopy
retro_sara_283,
Tarsius syrichta ENSTSYG00000001037 1 retrocopy
retro_tsyr_557 ,


Copyright © RetrogeneDB 2014-2017