RetrogeneDB ID:

retro_acar_186

Retrocopy
location
Organism:Anole lizard (Anolis carolinensis)
Coordinates:GL343393.1:307488..309261(-)
Located in intron of:ENSACAG00000014975
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:NF2
Ensembl ID:ENSACAG00000008829
Aliases:None
Description:neurofibromin 2 (merlin) [Source:HGNC Symbol;Acc:7773]


Retrocopy-Parental alignment summary:






>retro_acar_186
ATGGCCGGCGTCATCGCCTCCCGGATGAGCTTCAGCTCCTTGAAGAGGAAGCAGCCCAAGACCTTCACCGTCCGCATCGT
CACCATGGAGGCCGAGATGGAGTTCAACTGCGAGACCAAATGGAAAGGGAAGGACCTCTTTGACCTCGTCTGCCGGACGC
TGGGGCTCCGCGAGACCTGGTTCTTTGGGCTGCAGTACATGATCAAGGACACCGTGGCCTGGCTCAAGATGGACAAGAAG
GTCTTGGACCACGATGTCCCGAAGGAGGAGCCAGTCACCTTCCACTTCCTGGCCAAGTTCTACCCGGAGAACGCAGAGGA
GGAACTGGTCCAGGAAATCACACAACACTTATTCTTTCTTCAGGTCAAGAAGCAGATTTTGGACGAGAAGATCTACTGTC
CTCCTGAAGCCTCCGTCCTTCTCGCTTCCTACGCAGTCCAAGCCAAGTATGGAGATTATGATCCCGGTGTTCACAAACGT
GGCTTCCTTGCTCAGGAAGAACTGCTTCCGAAACGGGTGGTCAACCTATACCAGATGACCCCGGAAATGTGGGAGGAAAG
GATCACCGCTTGGTACAGCCAACATCGCGGAAGAGCCAGGGATGAGGCGGACATGGAGTACCTCAAGATCGCCCAGGACC
TCGAGATGTATGGCGTCAACTATTTTGCAATCCGGAATAAGAAAGGAACCGAGCTGCTTCTGGGAGTGGACGCCTTGGGC
CTCCATATCTACGACCCCGAAAACAAGCTGACCCCCAAAATCTCCTTCCAGTGGAATGAGATCCGCAACGTCTCCTACAG
CGATAAGGAGTTCACCATTAAGCCCCTGGATAAGAAGATCGACGTCTTCAAGTTCAACTCCTCCAAGCTCCGGGTCAATA
AACTGATCCTACAGCTCTGCATCGGAAACCATGACCTGTTCATGAGGAGGAGGAAGGCCGACTCCTTGGAGGTCCAGCAG
ATGAAGGCCCAGGCCCGGGAGGAGAAGGCCCGCAAGCAGATAGAACGGCAGTGCTTGGCGCGAGAGAAACATATGCGGGA
GGAGGCCGAACGAAACCGGGACGAGTTGGAGCGGCGGCTGTTGCAACTGAAAGAAGAGGCGAGCATGGCCAACGAAGCCT
TAATGCGCTCGGAGGAAACGGCGGACCTGCTGGCCGAAAAGACCCAGATCACCGAAGAGGAGGCGAAGCTCCTGGCCCAG
AAAGCGGCCGAAGCCGAGCAGGAGATGCAGCGGATCAAGGCCACCGCCATCCGGACGGAGGAGGAGAAGCGGCTCATGGA
GCAGAAAGTCCTGGGGGCCGAGATGCTGGCGCTCAAGATGGCAGAGGAGTCCGAGCGGAGGGCAAAGGAAGCCGACCAGC
TCAAGCAGGACCTGCAAGAGGCGCGGGACTCGGAGCGAAGAGCCAAGCAGAAGCTCCTGGAAATCACCAACAAGTCCTAC
ACACAGGCCATGAGTGCGAGTCCCGCCGCCGTGCTGCCCGCCGATTTGCCCTCCTACGGACACACCAGCGAGAGCCTCTC
CTTCGACTTCAAAGATACGGATATGAAGAGACTGTCCATGGAGATCGAGAAAGAGAAGGTGGAATATATGGAGAAAAGCA
AGCACCTCCAAGAACAGCTGAATGAGCTGAAGACAGAAATCGAGGCCTTGAAGCTGAAGGAGCGAGAGACCGCCATGGGT
TTCTTGCACAACGAGAGCAACAGCAAGCACAGCACCATCGAGAGGCTGACCTTGCAGAGCACAAAATCCCGAGTGGCTTT
CTTTGAGGAACTC

ORF - retro_acar_186 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 95.13 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMAGAIASRMSFSSLKRKQPKTFTVRIVTMEAEMEFNCEVKWKGKDLFDLVCRTLGLRETWFFGLQYMIKD
MAG.IASRMSFSSLKRKQPKTFTVRIVTMEAEMEFNCE.KWKGKDLFDLVCRTLGLRETWFFGLQYMIKD
RetrocopyMAGVIASRMSFSSLKRKQPKTFTVRIVTMEAEMEFNCETKWKGKDLFDLVCRTLGLRETWFFGLQYMIKD
ParentalTMAWLKMDKKVLDHDVPKEEPVTFHFLAKFYPENAEEELVQEITQHLFFLQVKKQILDEKIYCPPEASVL
T.AWLKMDKKVLDHDVPKEEPVTFHFLAKFYPENAEEELVQEITQHLFFLQVKKQILDEKIYCPPEASVL
RetrocopyTVAWLKMDKKVLDHDVPKEEPVTFHFLAKFYPENAEEELVQEITQHLFFLQVKKQILDEKIYCPPEASVL
ParentalLASYAVQAKYGDYDPGVHKRGFLAQEELLPKRVINLYQMTPEMWEERITAWYGQHRGRARDEAEMEYLKI
LASYAVQAKYGDYDPGVHKRGFLAQEELLPKRV.NLYQMTPEMWEERITAWY.QHRGRARDEA.MEYLKI
RetrocopyLASYAVQAKYGDYDPGVHKRGFLAQEELLPKRVVNLYQMTPEMWEERITAWYSQHRGRARDEADMEYLKI
ParentalAQDLEMYGVNYFAIRNKKGTELLLGVDALGLHIYDPENKLTPKISFPWNEIRNVSYSDKEFTIKPLDKKI
AQDLEMYGVNYFAIRNKKGTELLLGVDALGLHIYDPENKLTPKISF.WNEIRNVSYSDKEFTIKPLDKKI
RetrocopyAQDLEMYGVNYFAIRNKKGTELLLGVDALGLHIYDPENKLTPKISFQWNEIRNVSYSDKEFTIKPLDKKI
ParentalDVFKFNSSKLRVNKLILQLCIGNHDLFMRRRKADSLEVQQMKAQAREEKARKQMERQRLAREKQMREEAE
DVFKFNSSKLRVNKLILQLCIGNHDLFMRRRKADSLEVQQMKAQAREEKARKQ.ERQ.LAREK.MREEAE
RetrocopyDVFKFNSSKLRVNKLILQLCIGNHDLFMRRRKADSLEVQQMKAQAREEKARKQIERQCLAREKHMREEAE
ParentalRTRDELERRLLQLKEEATMANEALMRSEETADLLAEKAQITEEEAKLLAQKAAEAEQEMQRIKATAIRTE
R.RDELERRLLQLKEEA.MANEALMRSEETADLLAEK.QITEEEAKLLAQKAAEAEQEMQRIKATAIRTE
RetrocopyRNRDELERRLLQLKEEASMANEALMRSEETADLLAEKTQITEEEAKLLAQKAAEAEQEMQRIKATAIRTE
ParentalEEKRLMEQKVLEAEMLALKMAEESERRAKEADQLKQDLQEARDSERRAKQKLLEITNKSSYTQAMSASPA
EEKRLMEQKVL.AEMLALKMAEESERRAKEADQLKQDLQEARDSERRAKQKLLEITNK.SYTQAMSASPA
RetrocopyEEKRLMEQKVLGAEMLALKMAEESERRAKEADQLKQDLQEARDSERRAKQKLLEITNK-SYTQAMSASPA
ParentalTALPADLPAYGLISESLSFDFKDTDMKRLSMEIEKEKVEYMEKSKHLQEQLNELKTEIEALKLKERETAM
..LPADLP.YG..SESLSFDFKDTDMKRLSMEIEKEKVEYMEKSKHLQEQLNELKTEIEALKLKERETAM
RetrocopyAVLPADLPSYGHTSESLSFDFKDTDMKRLSMEIEKEKVEYMEKSKHLQEQLNELKTEIEALKLKERETAM
ParentalDILHNESNDRGNSKHNTIKKLTLQSTKSRVAFFEEL
..LHNESN....SKH.TI..LTLQSTKSRVAFFEEL
RetrocopyGFLHNESN----SKHSTIERLTLQSTKSRVAFFEEL

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 4 .43 RPM 6 .43 RPM
SRP009831_brain 3 .12 RPM 8 .62 RPM
SRP009831_dewlap 0 .97 RPM 7 .76 RPM
SRP009831_embryo 19 .12 RPM 36 .34 RPM
SRP009831_heart 5 .81 RPM 10 .95 RPM
SRP009831_liver 6 .67 RPM 2 .86 RPM
SRP009831_lung 11 .33 RPM 7 .35 RPM
SRP009831_ovary 0 .69 RPM 9 .38 RPM
SRP009831_skeletal_muscle 7 .94 RPM 7 .25 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_186 retrocopy.

TSS - click to see more details

Anolis carolinensis was not studied using FANTOM5 data.

Lab - click to see more details

retro_acar_186 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 ENSACAG00000008829 1 retrocopy
retro_acar_186 ,




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