RetrogeneDB ID:

retro_acar_197

Retrocopy
location
Organism:Anole lizard (Anolis carolinensis)
Coordinates:GL343634.1:169551..169876(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RBM3
Ensembl ID:ENSACAG00000013718
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_acar_197
AGAGACAGGGGCTTTAGCTTAATCATCTTAACCAGTCATGAGCATGCATTAAATGCCATGATAGTCATGAATGGTGGGTA
TATAGAAGGATGCCATATCAGAGTTGACCATGCCGAAAAATCTTCCCATAGACCTAGAAGTGGATATTTTGGAGGCAGAG
GGTATGGCTGTGGATATTCCCAATCTAGTAGAGACAAACGCTATGGTGGATGCTAATGAAAACCAAAGTGGAGGTTACTG
TGATTTCTGGGACTATGGAGGAAGTCAGGAAGTGTATAATGACCACTATTCCTCAGACGTCTCTTACAGAAACAACTATG
ACAAT

ORF - retro_acar_197 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 56.88 %
Parental protein coverage: 71.05 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalRSRGFGFITFANPEHASDAMRAMNGESVDGRQIRVDHAGKSSRGSRGGYFGGRGRGRGYSRGGGDRSYGG
R.RGF..I.....EHA..AM..MNG....G..IRVDHA.KSS...R.GYFGGRG.G.GYS....D..YGG
RetrocopyRDRGFSLIILTSHEHALNAMIVMNGGYIEGCHIRVDHAEKSSHRPRSGYFGGRGYGCGYSQSSRDKRYGG
Parental-RYDNRSGGYGGSRDYGRSQGGYNDRYSSGGSYRDNYDN
....N.SGGY....DYG.SQ..YND.YSS..SYR.NYDN
Retrocopy>ANENQSGGYCDFWDYGGSQEVYNDHYSSDVSYRNNYDN

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 .00 RPM 930 .50 RPM
SRP009831_brain 0 .00 RPM 221 .60 RPM
SRP009831_dewlap 0 .00 RPM 508 .73 RPM
SRP009831_embryo 0 .03 RPM 1829 .39 RPM
SRP009831_heart 0 .00 RPM 332 .77 RPM
SRP009831_liver 0 .00 RPM 516 .06 RPM
SRP009831_lung 0 .00 RPM 436 .93 RPM
SRP009831_ovary 0 .04 RPM 507 .43 RPM
SRP009831_skeletal_muscle 0 .00 RPM 205 .49 RPM
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_197 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_197 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 21 parental genes, and 47 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG00000013718 1 retrocopy
retro_acar_197 ,
Ailuropoda melanoleuca ENSAMEG000000126531 retrocopy
Bos taurus ENSBTAG000000258481 retrocopy
Canis familiaris ENSCAFG000000154852 retrocopies
Cavia porcellus ENSCPOG000000035531 retrocopy
Dasypus novemcinctus ENSDNOG0000001042016 retrocopies
Dipodomys ordii ENSDORG000000001821 retrocopy
Equus caballus ENSECAG000000242572 retrocopies
Homo sapiens ENSG000001023171 retrocopy
Gadus morhua ENSGMOG000000121371 retrocopy
Loxodonta africana ENSLAFG000000070031 retrocopy
Myotis lucifugus ENSMLUG000000039961 retrocopy
Mus musculus ENSMUSG000000311674 retrocopies
Nomascus leucogenys ENSNLEG000000078412 retrocopies
Pongo abelii ENSPPYG000000203141 retrocopy
Pan troglodytes ENSPTRG000000218641 retrocopy
Pteropus vampyrus ENSPVAG000000156301 retrocopy
Sus scrofa ENSSSCG000000215911 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000274931 retrocopy
Tarsius syrichta ENSTSYG000000086704 retrocopies
Tursiops truncatus ENSTTRG000000085873 retrocopies



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