RetrogeneDB ID:

retro_acar_123

Retrocopy
location
Organism:Anole lizard (Anolis carolinensis)
Coordinates:4:106351316..106351760(+)
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:ENSACAG00000005040
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_acar_123
ATGCAGCTCAAGGTGAAGAGGCTGCTAGGACAGCAGTGCTGCCTCCAGGTATCCGGTCACGAGAGCATCTCTCTGTTGAA
AAGCCTGGTTTCAGAAGAACTGAAGGTCCCTGAGGATCAGACCACTTTGTTGTTTCAGGGCAAAGTGCTAGATGAGGACC
ACAGATTGTCAGATTATTCTATTGGCCCAGAATCCGTCCTCTATCTTGCCATTAAAAAACCTCAGCTAACGCCTCTGAAT
GAGCCCTCAAAACCCACCTTTGCCCAGGCCCATTCTGTGTGGTACCAGCTCTCCCAAGTCCTGGAGAACCACTTCAGAAC
CTCTGATGCCATAAAAGTTCTTGAAAGAGTCGTGAATGACTACTACAAAAGCCTTGGCTTATTGAGTTTGAAAAACATTG
AAGAGTTAGCCAGGGATATTCTGAATCCCAAGGAAACTGAGGCT

ORF - retro_acar_123 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 53.02 %
Parental protein coverage: 95.51 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMLLTVKALQGRECSLQVSPEERISSLKRLVSEKLNVPVSQQRLLFKGKALADEHRLSDYSIGPESKLNLV
M.L.VK.L.G..C.LQVS..E.IS.LK.LVSE.L.VP..Q..LLF.GK.L...HRLSDYSIGPES.L.L.
RetrocopyMQLKVKRLLGQQCCLQVSGHESISLLKSLVSEELKVPEDQTTLLFQGKVLDEDHRLSDYSIGPESVLYLA
ParentalIKPPEKASPEESSRRAGFPQNPAIWHAVAQVLGRHFSGADAEKVLEQLQKDYERSLRLLSLDDIERLATR
IK.P......E.S....F.Q....W....QVL..HF...DA.KVLE....DY..SL.LLSL..IE.LA..
RetrocopyIKKPQLTPLNEPSKPT-FAQAHSVWYQLSQVLENHFRTSDAIKVLERVVNDYYKSLGLLSLKNIEELARD
ParentalLLHPEVAEA
.L.P...EA
RetrocopyILNPKETEA

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 .13 RPM 79 .66 RPM
SRP009831_brain 0 .14 RPM 88 .95 RPM
SRP009831_dewlap 0 .08 RPM 101 .67 RPM
SRP009831_embryo 0 .06 RPM 131 .80 RPM
SRP009831_heart 0 .26 RPM 58 .06 RPM
SRP009831_liver 0 .00 RPM 52 .44 RPM
SRP009831_lung 0 .15 RPM 56 .62 RPM
SRP009831_ovary 0 .08 RPM 102 .16 RPM
SRP009831_skeletal_muscle 0 .04 RPM 42 .83 RPM
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_123 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_123 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 5 parental genes, and 5 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG00000005040 1 retrocopy
retro_acar_123 ,
Bos taurus ENSBTAG000000143311 retrocopy
Callithrix jacchus ENSCJAG000000168051 retrocopy
Ochotona princeps ENSOPRG000000126451 retrocopy
Rattus norvegicus ENSRNOG000000372501 retrocopy



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