RetrogeneDB ID:

retro_acar_35

Retrocopy
location
Organism:Anole lizard (Anolis carolinensis)
Coordinates:4:115470472..115471396(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSACAG00000008897
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:SLC25A3
Ensembl ID:ENSACAG00000013232
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_acar_35
GAGGAGGACTCCTGCGAGTATGGGTCACTGACATATCTGTTACTCTGCTCGCTGGGTGGCGTCTTGAGCTGTGGATTGAC
CCATACGGCTGTTGTACCCCTGGATGTTGTGAAGTGCCGGATGCAGGTGGACCCATACCGCTACAAAGGCCTTGTCCCAG
GCCTAAACCGCACCGTGCAAGAAGAGGGGATGCGTGGCCTGGTCAAGGGATGGGCCCCAACAGCCATCGGTTACTCAATG
CAAGGACTTGGCAAGTTTGGTCTCTATGAGTTCTTCAAGATCTACTACTCCGACTTGTTAGGTCCTGAACAAGCCTATCT
GTGGCGAACTAGCATCTACCTTGCGGCTTCGGCCAGTGCTGAGTTCTTCGCCGACATTGCGTTGGCCCCCATGGAAGCGG
TCAAGGTCCGGATCCAGACCCAGCAGGGCTATGCAAACACGCTGCGGGAGGCTGTACCCAAGATGTACTTTGAAGAAGGG
CTGTGGGCTTTCTATAAGGGAGTCTCTCCACTGTGGATGCGGCAGATCCCGTACACCATGATGAAGTTCTCCTGCTTCGA
GCGCACTGTGGAGGCTCTCTATAAGTACGTCGTCCCCAAGCCACGTGATAAGTGCAGCAAGATGGAGCAACTGGGAGTCA
CGTTTGTTGGCGGATATATCGCAGGCATCTTCTGCGCAATAGTCTCACACCCGGCTGATTCTGTGGTGTCGGTGCTCAAC
AAAGAAAAGGGCAGCACTGCCCTGGGTGTCCTCAAGAGGTTGGGCATGTATGGCATCTGGAAAGGTCTCTTCACCCGCAT
CCTGATGATCGGCACTCTCACTGCCCTGCAGTGGTTCATCTATGACTCCGTTAAGGTTTATCTCAGATTGCCTCGCCCCC
CACCGCCTGAAATGCCTGCTTCTTTGAAGAAGAATCTCTCTCAA

ORF - retro_acar_35 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 80.07 %
Parental protein coverage: 84.76 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalEEYSCEYGSLKFYALCGFGGILSCGLTHTAVVPLDLVKCRIQVDPQKYKSIFNGFSVTVKEDGVRGLAKG
EE.SCEYGSL....LC..GG.LSCGLTHTAVVPLD.VKCR.QVDP..YK....G...TV.E.G.RGL.KG
RetrocopyEEDSCEYGSLTYLLLCSLGGVLSCGLTHTAVVPLDVVKCRMQVDPYRYKGLVPGLNRTVQEEGMRGLVKG
ParentalWAPTFIGYSMQGLCKFGFYEVFKILYGNLLGEENTYLWRTSLYLAASASAEFFADIALAPMEAAKVRIQT
WAPT.IGYSMQGL.KFG.YE.FKI.Y..LLG.E..YLWRTS.YLAASASAEFFADIALAPMEA.KVRIQT
RetrocopyWAPTAIGYSMQGLGKFGLYEFFKIYYSDLLGPEQAYLWRTSIYLAASASAEFFADIALAPMEAVKVRIQT
ParentalQPGYANTLRQAAPKMFAEEGIWAFYKGVAPLWMRQIPYTMMKFACFERTVEALYKHVVPKPRSECSKGEQ
Q.GYANTLR.A.PKM..EEG.WAFYKGV.PLWMRQIPYTMMKF.CFERTVEALYK.VVPKPR..CSK.EQ
RetrocopyQQGYANTLREAVPKMYFEEGLWAFYKGVSPLWMRQIPYTMMKFSCFERTVEALYKYVVPKPRDKCSKMEQ
ParentalLVVTFVAGYIAGVFCAIVSHPADSVVSVLNKEKGSSAMEVLKRLGIKGVWKGLFARIIMIGTLTALQWFI
L.VTFV.GYIAG.FCAIVSHPADSVVSVLNKEKGS.A..VLKRLG..G.WKGLF.RI.MIGTLTALQWFI
RetrocopyLGVTFVGGYIAGIFCAIVSHPADSVVSVLNKEKGSTALGVLKRLGMYGIWKGLFTRILMIGTLTALQWFI
ParentalYDSVKVYFRLPRPPPPEMPESLKKKL
YDSVKVY.RLPRPPPPEMP.SLKK.L
RetrocopyYDSVKVYLRLPRPPPPEMPASLKKNL

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 598 .08 RPM
SRP009831_brain 0 .09 RPM 375 .17 RPM
SRP009831_dewlap 0 .30 RPM 236 .25 RPM
SRP009831_embryo 0 .00 RPM 680 .08 RPM
SRP009831_heart 0 .00 RPM 918 .37 RPM
SRP009831_liver 0 .04 RPM 431 .03 RPM
SRP009831_lung 0 .00 RPM 235 .24 RPM
SRP009831_ovary 0 .31 RPM 194 .20 RPM
SRP009831_skeletal_muscle 0 .00 RPM 288 .39 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_35 retrocopy.

TSS - click to see more details

Anolis carolinensis was not studied using FANTOM5 data.

Lab - click to see more details

retro_acar_35 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 27 parental genes, and 32 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG00000013232 1 retrocopy
retro_acar_35 ,
Bos taurus ENSBTAG000000128901 retrocopy
retro_btau_172,
Canis familiaris ENSCAFG000000065451 retrocopy
retro_cfam_880,
Callithrix jacchus ENSCJAG000000023922 retrocopies
retro_cjac_3315, retro_cjac_812,
Dipodomys ordii ENSDORG000000114311 retrocopy
retro_dord_321,
Equus caballus ENSECAG000000151351 retrocopy
retro_ecab_481,
Echinops telfairi ENSETEG000000126781 retrocopy
retro_etel_1748,
Homo sapiens ENSG000000754151 retrocopy
retro_hsap_392,
Gorilla gorilla ENSGGOG000000158861 retrocopy
retro_ggor_394,
Latimeria chalumnae ENSLACG000000070241 retrocopy
retro_lcha_4,
Macropus eugenii ENSMEUG000000165932 retrocopies
retro_meug_405, retro_meug_658,
Microcebus murinus ENSMICG000000035201 retrocopy
retro_mmur_298,
Myotis lucifugus ENSMLUG000000083301 retrocopy
retro_mluc_1184,
Macaca mulatta ENSMMUG000000230361 retrocopy
retro_mmul_496,
Monodelphis domestica ENSMODG000000077172 retrocopies
retro_mdom_2026, retro_mdom_293,
Mus musculus ENSMUSG000000619041 retrocopy
retro_mmus_1959,
Nomascus leucogenys ENSNLEG000000059731 retrocopy
retro_nleu_2402,
Oryctolagus cuniculus ENSOCUG000000118471 retrocopy
retro_ocun_390,
Otolemur garnettii ENSOGAG000000122222 retrocopies
retro_ogar_1816, retro_ogar_2052,
Pongo abelii ENSPPYG000000048581 retrocopy
retro_pabe_1768,
Pan troglodytes ENSPTRG000000053331 retrocopy
retro_ptro_302,
Pteropus vampyrus ENSPVAG000000058901 retrocopy
retro_pvam_212,
Sorex araneus ENSSARG000000011491 retrocopy
retro_sara_262,
Ictidomys tridecemlineatus ENSSTOG000000276332 retrocopies
retro_itri_485, retro_itri_90,
Tupaia belangeri ENSTBEG000000145481 retrocopy
retro_tbel_1792,
Tursiops truncatus ENSTTRG000000047391 retrocopy
retro_ttru_692,
Vicugna pacos ENSVPAG000000047041 retrocopy
retro_vpac_455,


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