RetrogeneDB ID:

retro_acar_89

Retrocopy
location
Organism:Anole lizard (Anolis carolinensis)
Coordinates:2:47993819..47995559(-)
Located in intron of:ENSACAG00000012478
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:NCAPG2
Ensembl ID:ENSACAG00000011704
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_acar_89
CCTAAAGTATGAGAGTTCCTGAGCTAATTCCACAAACAAAACAAATTCTGCCAAGAAGTTGAAGAAGTCCTTTACCAACT
TTACCAGCCTATTCTTTGGAGATCACTAAAAGCCAGGAACACAGAAGTTTGTTCAAATGCAGCATTGCTATTTGTTGATG
CATTTCCTATTTTGGATCCTGGTTGTAACAGCGAAGATACTGATAATGAAATCCAAATGCAATTTGATGAACTTTTTAAT
CTCTTGGAGGATCTTCAGCCTCTGGTTTGCTCAACAGGGGTACCTGGTGTTAGTAAAATAGCATTCAGATATTGGGAAAT
GATTCCTGCAACCGTGCTTGCTGATCTTTTAAAAGCTCTAATTGAAAAACTTGTGTTTGATGCAACATCAGCAGATGTTC
AGTGCTCTGTTTTTAAATGCTTGCCTATAATTTTGGACAAGGTACTAAGCCACCCGTTATTGGAACAACTCCTGCCAGCT
CTGAAATACAATCTCAATGACAATTTGGAGAAAGTTAGAGTAGCTTTTGTTGATATGTTGCTGAAAATTAAGTCTGTCAA
GGCTGCTAAGTTTTGGAAAATCTGTTTGATAGACAGTCTCCTAATCTGTTTTGAGATGGAATCATGCCCTGTGTTGCAGT
GCCTAGTAAGTCTTGTGTTCAGCTCCTTTCCCCCCACTGATCAGCCAGAAGAAGTCTGGTGCGAGAGCTGTGTTACGTTG
ATCCAGATGAACCCATTCACAGTCAGAAAGTTCTAGCAGTACATGTACAAGAACATGAGGCCATCCAACATAGCTAAATT
GATGCTTACCATTCAGAGATGTTTGAATGCCTATATCCAGCAGGGATTAAATGCATCTGACAGTGGTGATGAAGAAAGCA
AAAAAGAAAACATGAGTACGTCAGATAATGTGCTATGAGCCGATGATGTGCCTTCTATGGCTGGCTTGCTCAAAGTTGTC
ATGATTCTCTGGAGAAGTATTCTTAAAGTGCTTGATAGTAATGAAGAAGAAAAAAATAATATTGTTCAAAATTTTGCATC
GGTACTCCCTGAATATTTAAATATATTTAAGCATGACCGTTGTACATCACTCATAATTATTATAGTATCTTTCATGACGT
CTGCAAGTATTCCTACATTCAGTTGTGGTGTGATCTTTAAACTGAAGAATCTGGAAAATGGTGAACTGAAAATAAATACT
CAACTCTACTTGAGTGTCTCTGCCGTTGGGGAAAAGTGGGCCATGTTCTTGAATTAATCTGTGATTGGATGGCTGCTGAG
CCAAGCAGGAGGGAGAGTAATGGGGTATCTGAATGGCAAGTACGTATCCAAGAAACACATGAACCAAAACTTGAATTGGC
ATTTGATTATATAGAGTAATTACTGACTCATTATATGAATCAGAATTGTCTGTTGCCATTGCCCAAAGAGAAGCTGAACC
AACTTTTGAAACTTCTTGAAGCTTCAAAAGATGTCTTTGATTCATATATTAGAGAAAGTGATCCAAGGTCTTTTCGTTCT
TGCAAGCCAACTGCATTGAGAGACTTTGGTCTATACTGTAGGTTGAACAATACATCTTCAATACAAGTTTGCCTCGGATG
GTCAGGATTACCTGTCAGCTTTGGAGGAAACAGGGGTGTGGATAGGAAATAGCATTCTATCCACTCTTTTAACTCATGAG
GAAGAAGGGCATGCAGAACACTTCAGTGAAATCTCTCAGCTGGTGGTCCAGACAATGATT

ORF - retro_acar_89 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 80.62 %
Parental protein coverage: 62.27 %
Number of stop codons detected: 5
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalPKVREFLSYFHKQNKCRQGVEEVLYRLYQPILWRSLKARNSEVRSNAALLFIDAFPILDPGFNREDTDNE
PKV.EFLS.FHKQNK..Q.VEEVLY.LYQPILWRSLKARN.EV.SNAALLF.DAFPILDPG.N.EDTDNE
RetrocopyPKV*EFLS*FHKQNKFCQEVEEVLYQLYQPILWRSLKARNTEVCSNAALLFVDAFPILDPGCNSEDTDNE
ParentalIQRQFDELFSLLEDPQPLVRSTGVLGVCKIAFKYWEMIPATVLADLLKALIEKLAFDATSADVRCSVFKC
IQ.QFDELF.LLED.QPLV.STGV.GV.KIAF.YWEMIPATVLADLLKALIEKL.FDATSADV.CSVFKC
RetrocopyIQMQFDELFNLLEDLQPLVCSTGVPGVSKIAFRYWEMIPATVLADLLKALIEKLVFDATSADVQCSVFKC
ParentalLPIILDNVLSHPLLEQLLPALKYNLHDNSEKVRVAFVDMLLKIKSVKAAKFWKICSIDSLLVRLEMDSRP
LPIILD.VLSHPLLEQLLPALKYNL.DN.EKVRVAFVDMLLKIKSVKAAKFWKIC.IDSLL...EM.S.P
RetrocopyLPIILDKVLSHPLLEQLLPALKYNLNDNLEKVRVAFVDMLLKIKSVKAAKFWKICLIDSLLICFEMESCP
ParentalVSRRLVSLLFSSFFPTDQPEEVWCERCVTLIQMNPAAARKFYLYAYENTSPSNIAKLMLTIQRCLNACIQ
V...LVSL.FSSF.PTDQPEEVWCE.CVTLIQMNP...RKF..Y.Y.N..PSNIAKLMLTIQRCLNA.IQ
RetrocopyVLQCLVSLVFSSFPPTDQPEEVWCESCVTLIQMNPFTVRKF*QYMYKNMRPSNIAKLMLTIQRCLNAYIQ
ParentalQGLKTSDSGDEDSEKENMSISDNVLSIDDVPSMAGLLEVVVILWRSIRKALDRNEEGKNHIIQKFASVLP
QGL..SDSGDE.S.KENMS.SDNVL..DDVPSMAGLL.VV.ILWRSI.K.LD.NEE.KN.I.Q.FASVLP
RetrocopyQGLNASDSGDEESKKENMSTSDNVL*ADDVPSMAGLLKVVMILWRSILKVLDSNEEEKNNIVQNFASVLP
ParentalDYLKIFKDERCISPIIIMASFMTPADIPTFSCGVISKLKNLENGA-TENKYSPLLDCLCRWGKVSHVIEL
.YL.IFK..RC.S.III..SFMT.A.IPTFSCGVI.KLKNLENG..TENKYS.LL.CLCRWGKV.HV.EL
RetrocopyEYLNIFKHDRCTSLIIIIVSFMTSASIPTFSCGVIFKLKNLENGE<TENKYSTLLECLCRWGKVGHVLEL
ParentalICDWMVAEPSRRESNGEGSERRVRIQETHESKPELALDYTEYLLTHYMNWNCLLSLPKEKLNQLLEVLEA
ICDWM.AEPSRRESNG..SE..VRIQETHE.K.ELA.DY.E.LLTHYMN.NCLL.LPKEKLNQLL..LEA
RetrocopyICDWMAAEPSRRESNGV-SEWQVRIQETHEPKLELAFDYIE*LLTHYMNQNCLLPLPKEKLNQLLKLLEA
ParentalAKDVLDSHIRESDARSPGFCKPTALRAFGLYCRL-SIHLQYKFASDGQDYLSALEETGAWIGNSILPPLL
.KDV.DS.IRESD.RS...CKPTALR.FGLYCRL..IHLQYKFASDGQDYLSALEETG.WIGNSIL..LL
RetrocopySKDVFDSYIRESDPRSFRSCKPTALRDFGLYCRL>TIHLQYKFASDGQDYLSALEETGVWIGNSILSTLL
ParentalTDEEEGHSAHISETSRLVVQTYL
T.EEEGH..H.SE.S.LVVQT..
RetrocopyTHEEEGHAEHFSEISQLVVQTMI

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 0 .00 RPM 21 .73 RPM
SRP009831_brain 0 .00 RPM 1 .66 RPM
SRP009831_dewlap 0 .00 RPM 139 .01 RPM
SRP009831_embryo 0 .00 RPM 70 .75 RPM
SRP009831_heart 0 .10 RPM 1 .61 RPM
SRP009831_liver 0 .00 RPM 17 .10 RPM
SRP009831_lung 0 .35 RPM 2 .62 RPM
SRP009831_ovary 0 .00 RPM 122 .47 RPM
SRP009831_skeletal_muscle 0 .04 RPM 0 .40 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_89 retrocopy.

TSS - click to see more details

Anolis carolinensis was not studied using FANTOM5 data.

Lab - click to see more details

retro_acar_89 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 ENSACAG00000011704 1 retrocopy
retro_acar_89 ,


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