RetrogeneDB ID:

retro_acar_42

Retrocopy
location
Organism:Anole lizard (Anolis carolinensis)
Coordinates:AAWZ02037240:3560..4865(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSACAG00000004334
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSACAG00000023083
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_acar_42
ACTTCATTGTCAAAATCACACACAGGGGAGAAGCGACATAATTGTAAGGACTGTGGGAAATGTTTCATTGAGAGAAGTTC
TCTTGCTAAACATCAACGAACTCACACAGGAGAGAAGCCATATAAATGTGTGGAATGTGGAAAGAGCTTCAATCAGAGTG
GAAATCTACACACCCATCAAAGGACTCACACAGGGGAGAAGCCACATACATGCATGGAATGTGGAAAGAGCTTCAGTCAG
AGTGGAGATCTACGCACCCATCAAAGGACTCACACAGGGGAGAAGCCACATACATGCATGGAATGTGGAAAGAGCTTCAG
TCAGAGTGGACATCTGCGTATCCATCAAAGGATGCACACAGGAGAGAAGCCACATAAATGCATGGAATGTGGAAATAGCT
TCTGTCAGAGTGGAGCTCTGCGTATCCATCAAAGGATACACACAGGAGAGAAGCCACATACATGCATGGAATGTGGAAAG
AGCTTCAGTCAGAGTGGAGATCTACGCACCCATCAAAGGATCCACACAGGGGAGAAGCCACATACATGCATGGAATGTGG
AAAGAGATTCAGTAAGAGTGGACATCTACGCACCCATCAAAGGATCCACACAGGGGAGAAGCCACATACATGCAGGGAAT
GTGGAAAGAGATTCAGTGAGAGTGGACATCTGCGTATCCATCAAAGGATGCACACAGGAGAGAGGCCACATACATGCATG
GAATGTGGAAAGAGATTCAGTCGGAGTGGAAATCTACGCACCCATCAAAGGACTCACACAGGGGAGAAGCCACATACATG
CATGGAATGTGGAAAGAGCTTCAGTAAGAGTGGACATCTGCGTATCCATCAAAGGATACACACAGGAGAGAAGCCACATA
AATGCATGGAATGTGGAAAGAGCTTCAGTCAGAGTGGAGATCTACGCACCCATCAAAGGATCCACACAGGGGAGAAGCCA
CATAAATGCGTGGAATGTGGAAAGAGCTTCATTCAGAGTGGAGATCTACGCACCCATCAAAGGATCCACACAGGGGAGAA
GCCACATAAATGCGTGGAATGTGGAAAGAGCTTCATTCAGAGTGGAGATCTACGCACCCATCAAAGGACTCACACAGGGG
AGAAGCCACATACATGCATGGAATGTGGAAACAGCTTCAGTCAGAGTGGACATCTGCGTATCCATCAAAAGACTCACACA
GGGGAGAAGCCACATAAATGCATGGAATGTGGAAAGAACTATAGTAACAGTTCGAATCTTCATACCCATCAAAAGATTCA
CACAGGAGAGAAGCCACATAAATAG

ORF - retro_acar_42 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 86.57 %
Parental protein coverage: 62.43 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalDCGKCFIERSSLAKHQRTHTGEKPYKCVECGKSFSQSGHLRIHQRIHTGEKPHTCMECGKSFSKSGNLRT
DCGKCFIERSSLAKHQRTHTGEKPYKCVECGKSF.QSG.L..HQR.HTGEKPHTCMECGKSFS.SG.LRT
RetrocopyDCGKCFIERSSLAKHQRTHTGEKPYKCVECGKSFNQSGNLHTHQRTHTGEKPHTCMECGKSFSQSGDLRT
ParentalHQRTHTGEKPYKCMECGKSFSRSDYLRSHQRTHTGEKPHTCRECGKRFSESGHLRIHQRMHTGEKPHTCM
HQRTHTGEKP..CMECGKSFS.S..LR.HQR.HTGEKPH.C.ECG..F..SG.LRIHQR.HTGEKPHTCM
RetrocopyHQRTHTGEKPHTCMECGKSFSQSGHLRIHQRMHTGEKPHKCMECGNSFCQSGALRIHQRIHTGEKPHTCM
ParentalECGKRFSKSGHLRIHQRTHTGEKPHTCRECGKRFSESGHLRIHQRTHTGEKPHTCRECGKRFSESGHLRI
ECGK.FS.SG.LR.HQR.HTGEKPHTC.ECGKRFS.SGHLR.HQR.HTGEKPHTCRECGKRFSESGHLRI
RetrocopyECGKSFSQSGDLRTHQRIHTGEKPHTCMECGKRFSKSGHLRTHQRIHTGEKPHTCRECGKRFSESGHLRI
ParentalHQRMHTGERPHTCMECGKSFSESGNLRTHQRTHTGEKPHTCMECGKRFSKSGHLRIHQRIHTGEKPHKCM
HQRMHTGERPHTCMECGK.FS.SGNLRTHQRTHTGEKPHTCMECGK.FSKSGHLRIHQRIHTGEKPHKCM
RetrocopyHQRMHTGERPHTCMECGKRFSRSGNLRTHQRTHTGEKPHTCMECGKSFSKSGHLRIHQRIHTGEKPHKCM
ParentalECGKSFSQSGDLCTHQRIHTGEKPHKCVECGKSFIQSGDLRTHQRIHTGEKPHKCVECGKSFSQSGDLRT
ECGKSFSQSGDL.THQRIHTGEKPHKCVECGKSFIQSGDLRTHQRIHTGEKPHKCVECGKSF.QSGDLRT
RetrocopyECGKSFSQSGDLRTHQRIHTGEKPHKCVECGKSFIQSGDLRTHQRIHTGEKPHKCVECGKSFIQSGDLRT
ParentalHQKSHTGEKPHKCMECGKNFSNSSNLRTHQKIHTGEKPYKCVECGKSFSQSGHLHTHQRTHTREKPH
HQ..HTGEKPH.CMECG..FS.S..LR.HQK.HTGEKP.KC.ECGK..S.S..LHTHQ..HT.EKPH
RetrocopyHQRTHTGEKPHTCMECGNSFSQSGHLRIHQKTHTGEKPHKCMECGKNYSNSSNLHTHQKIHTGEKPH

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






RNA-Seq - click to see more details

(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 2 .92 RPM 0 .43 RPM
SRP009831_brain 3 .36 RPM 0 .38 RPM
SRP009831_dewlap 0 .38 RPM 0 .04 RPM
SRP009831_embryo 2 .90 RPM 0 .62 RPM
SRP009831_heart 4 .46 RPM 0 .52 RPM
SRP009831_liver 0 .94 RPM 0 .12 RPM
SRP009831_lung 5 .64 RPM 0 .76 RPM
SRP009831_ovary 0 .27 RPM 0 .08 RPM
SRP009831_skeletal_muscle 2 .73 RPM 0 .33 RPM

ChIP-Seq - click to see more details

Anolis carolinensis was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_acar_42 retrocopy.

TSS - click to see more details

Anolis carolinensis was not studied using FANTOM5 data.

Lab - click to see more details

retro_acar_42 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 1 parental gene, and 1 retrocopy.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG00000023083 1 retrocopy
retro_acar_42 ,


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