RetrogeneDB ID:

retro_chof_2602

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_89602:6659..7178(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSCHOG00000002893
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_chof_2602
AATGCTTATAATCAAGAGGAACGTGTTGTTTGTGCTGGCTATGACAATGAGGATATTAAACTGTCTGGTCTCAGAAATAT
GTCATTGCAGTGGGAGACAAACATAAAAAATGGGATATGTAGCGTGGAGTTTGACAGAAAAGATGTAAGTATGAATAAGT
TAGTAGCCACATCTTTGGAAGTAAAGTTCCATGTTTTTGACATGAGAACACAGCATCCAACCAAAGGTTTTGCCTCTGTT
TCGGAAAAGGCTCAGAAGTCTACCGTGTGGCAGGTCCGACACCTGCCACATTACAGAGAGTTCTTTCTGACTGCTGGAGG
TGCTGGTGGCCTTCACCTCTGGAAATACGAATACCCTATTCAGTGGTCAAAAAAAGATTCCAAGGGAATGGAGATGAGAG
TTGCGGGTTCCGTGAGCCTTCTGCAGAATGTGACGTTGTCTACCCAGCCCATTTCAAGTGTGGACTGGAGTCCGGATAAA
AGGGGTCTCTGCGTCGGCAGTTCGTTTGACCAAATGATT

ORF - retro_chof_2602 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 91.33 %
Parental protein coverage: 56.35 %
Number of stop codons detected: 0
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalNAYNQEERVVCAGYDNGDIKLFDLRNMSLRWETNIKNGVCSVEFDRKDISMNKLVATSLEGKFHVFDMRT
NAYNQEERVVCAGYDN.DIKL..LRNMSL.WETNIKNG.CSVEFDRKD.SMNKLVATSLE.KFHVFDMRT
RetrocopyNAYNQEERVVCAGYDNEDIKLSGLRNMSLQWETNIKNGICSVEFDRKDVSMNKLVATSLEVKFHVFDMRT
ParentalQHPTKGFASVSEKAQKSTVWQVRHLPQNRELFLTAGGAGGLHLWKYEYPIQRSKKDSEGMEMGVAGSVSL
QHPTKGFASVSEKAQKSTVWQVRHLP..RE.FLTAGGAGGLHLWKYEYPIQ.SKKDS.GMEM.VAGSVSL
RetrocopyQHPTKGFASVSEKAQKSTVWQVRHLPHYREFFLTAGGAGGLHLWKYEYPIQWSKKDSKGMEMRVAGSVSL
ParentalLQNVTLSTQPISSVDWSPDKRGLCVCSSFDQMV
LQNVTLSTQPISSVDWSPDKRGLCV.SSFDQM.
RetrocopyLQNVTLSTQPISSVDWSPDKRGLCVGSSFDQMI

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






RNA-Seq - click to see more details

Choloepus hoffmanni was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Choloepus hoffmanni was not studied using ChIP-Seq data.

EST - click to see more details

Choloepus hoffmanni was not studied using EST data.

TSS - click to see more details

Choloepus hoffmanni was not studied using FANTOM5 data.

Lab - click to see more details

retro_chof_2602 was not experimentally validated.

Retrocopy orthology:
Choloepus hoffmanni 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 19 parental genes, and 20 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000106191 retrocopy
retro_btau_1660,
Choloepus hoffmanni ENSCHOG00000002893 1 retrocopy
retro_chof_2602 ,
Dipodomys ordii ENSDORG000000197601 retrocopy
retro_dord_404,
Equus caballus ENSECAG000000096271 retrocopy
retro_ecab_651,
Felis catus ENSFCAG000000284821 retrocopy
retro_fcat_1639,
Homo sapiens ENSG000002218231 retrocopy
retro_hsap_3,
Loxodonta africana ENSLAFG000000226821 retrocopy
retro_lafr_1014,
Mustela putorius furoENSMPUG000000062501 retrocopy
retro_mputfur_537,
Nomascus leucogenys ENSNLEG000000265381 retrocopy
retro_nleu_1049,
Oryctolagus cuniculus ENSOCUG000000275621 retrocopy
retro_ocun_272,
Otolemur garnettii ENSOGAG000000348761 retrocopy
retro_ogar_1011,
Pan troglodytes ENSPTRG000000419411 retrocopy
retro_ptro_2909,
Rattus norvegicus ENSRNOG000000432101 retrocopy
retro_rnor_1932,
Sus scrofa ENSSSCG000000223621 retrocopy
retro_sscr_86,
Ictidomys tridecemlineatus ENSSTOG000000259851 retrocopy
retro_itri_1569,
Tarsius syrichta ENSTSYG000000195312 retrocopies
retro_tsyr_326, retro_tsyr_41,
Tursiops truncatus ENSTTRG000000213951 retrocopy
retro_ttru_382,
Vicugna pacos ENSVPAG000000155221 retrocopy
retro_vpac_3,
Drosophila melanogaster FBgn00156141 retrocopy
retro_dmel_53,


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