RetrogeneDB ID:

retro_acar_81

Retrocopy
location
Organism:Anole lizard (Anolis carolinensis)
Coordinates:2:89027674..89028077(+)
Located in intron of:ENSACAG00000012965
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSACAG00000012225
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_acar_81
GGACGTGTGCGCATAAAGACAGTAAAAAAGACTGCCAAGGTAATAATTGAAAAATATTATACTCGCCTTGGGAATGACTT
CCACACAAACAAACGAGTATGTGAGGAGATTGCCATCATCCCTAGCAAAAAGCTGCTCAACAAGATTGCAGGGTATGTTA
CCCATCTAATGAAATGCATTCAATGCAGGTCGGTCAAGAGGCATCTCCATCAAACTGTAGGAAGAGGAAAGAGAAAGAAG
GGACAACTATGTCCCTGAAGTCTCTGCCTTAGATCAGGAGATCATTGAAGTGGACCCTGATACAAAGGAGATGTTGAAGT
TGCTGGATTTTGGCAGCTTGTCCAACTTGCAGGTTACATAGCCCATTGTAGGGATGAACTTCAAAACCCCAAGAGGAGCC
ATC

ORF - retro_acar_81 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 91.11 %
Parental protein coverage: 100. %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalGRVRTKTVKKAARVIIEKYYTRLGNDFHTNKRVCEEIAIIPSKKLRNKIAGYVTHLMKRIQ-RGPVRGIS
GRVR.KTVKK.A.VIIEKYYTRLGNDFHTNKRVCEEIAIIPSKKL.NKIAGYVTHLMK.IQ..G..RGIS
RetrocopyGRVRIKTVKKTAKVIIEKYYTRLGNDFHTNKRVCEEIAIIPSKKLLNKIAGYVTHLMKCIQ>AGRSRGIS
ParentalIKLQEEERERRDNYVPEVSALDQEIIEVDPDTKEMLKLLDFGSLSNLQVTQPTVGMNFKTPRGAI
IKL.EEERERRDNYVPEVSALDQEIIEVDPDTKEMLKLLDFGSLSNLQVT.P.VGMNFKTPRGAI
RetrocopyIKL*EEERERRDNYVPEVSALDQEIIEVDPDTKEMLKLLDFGSLSNLQVT*PIVGMNFKTPRGAI

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






(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP009831_adrenal 0 .07 RPM 1633 .06 RPM
SRP009831_brain 0 .00 RPM 157 .55 RPM
SRP009831_dewlap 0 .00 RPM 272 .44 RPM
SRP009831_embryo 0 .18 RPM 706 .61 RPM
SRP009831_heart 0 .00 RPM 527 .80 RPM
SRP009831_liver 0 .04 RPM 1138 .06 RPM
SRP009831_lung 0 .00 RPM 577 .58 RPM
SRP009831_ovary 0 .00 RPM 255 .28 RPM
SRP009831_skeletal_muscle 0 .00 RPM 297 .89 RPM
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_81 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_81 was not experimentally validated.

Retrocopy orthology:
Anolis carolinensis 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 26 parental genes, and 147 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG00000012225 4 retrocopies
Ailuropoda melanoleuca ENSAMEG000000141225 retrocopies
Bos taurus ENSBTAG000000006224 retrocopies
Canis familiaris ENSCAFG000000130539 retrocopies
Cavia porcellus ENSCPOG000000146933 retrocopies
Dasypus novemcinctus ENSDNOG000000126336 retrocopies
Equus caballus ENSECAG000000249021 retrocopy
Echinops telfairi ENSETEG0000000803510 retrocopies
Felis catus ENSFCAG000000023587 retrocopies
Homo sapiens ENSG0000018277411 retrocopies
Homo sapiens ENSG000001847795 retrocopies
Loxodonta africana ENSLAFG000000317175 retrocopies
Myotis lucifugus ENSMLUG000000228303 retrocopies
Macaca mulatta ENSMMUG000000113276 retrocopies
Monodelphis domestica ENSMODG000000020119 retrocopies
Mustela putorius furoENSMPUG000000155715 retrocopies
Mus musculus ENSMUSG0000006178712 retrocopies
Oryctolagus cuniculus ENSOCUG000000063701 retrocopy
Otolemur garnettii ENSOGAG0000002410716 retrocopies
Pongo abelii ENSPPYG000000068883 retrocopies
Pteropus vampyrus ENSPVAG000000120228 retrocopies
Rattus norvegicus ENSRNOG000000191066 retrocopies
Sorex araneus ENSSARG000000130012 retrocopies
Sus scrofa ENSSSCG000000273582 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000062982 retrocopies
Tursiops truncatus ENSTTRG000000130112 retrocopies



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