RetrogeneDB ID:

retro_ecab_61

Retrocopy
location
Organism:Horse (Equus caballus)
Coordinates:10:22335488..22336925(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSECAG00000001145
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSECAG00000023794
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ecab_61
GCTTTTAGGAAAAGCTCATACCTCTCAAAACATGAGAGAATTCATTCTGCACAGAGACCTTACAAATGTAATGAGTGTGG
CAAAGCTTTTAATAAGTGCTTGAACCTTAGTAGACATCAGAAAATCCATACAAGAGAGAAACCATATAATTGTGATGTGG
GTGGCAAAATCTTTCATCAGAATTCAAACCTTGCAAGTCATCAGAGAATGGATACTGGCGAGAAACCTTACAAATGTAAT
GACTGCAGCAAGGCCTTTGCTAAACACTCAAGGCTTACTCAACATAAAAGAGTCCATACTGGAGAGAAACCTTACAAATG
TAATGAATGCAGCAAAGCCTTTGCTAGATGTTCAAGCCTTACTCAGCATAAGAGAATCCATACTGGAGAGAAACCTTACA
AATGTAGTGAATGCAGCAAAGCCTTTGCTGAACACTCAAAGCTTACTCAACATAAAAGAATCCATACTGGAGAAAAACCT
TACAAATGTAATGAATGCAAGAAAGCCTTTGCTAGACATTCAAGCCTTACTCAACATAAGAGAATCCATACTGGAGAGAA
ACCTTACAAATGTAATGAATGCAGCAAAGCCTTTCCTAGACACTCAATGCTTGCTCAACATAAAAGAATCCATACTGGAG
AAAAACCTTACAAATGTAATGAATGCAGCAAGTCCTTTGCTAAACGCTCAAGGCTTACTCAACATAAAAGAATCCATAAT
GGAGAGAAACCTTACAAATGTAGTGAATGCAGCAAAGCCTTTGCTAGACATTCAGGTCTTACTCAACATAAGATAATCCA
TACTGAAGAGAAACCTTGCAAATGTAGTAAGTGTGGCAAGGTATTTAGTCAAAAGTCAAGCCTTGAAAGTCATCAGAGAA
TTCATACTGGTGAGAAACCTTACAAATGTAATGAGTGTGGCAAATCTTTTACCCATTTTGTGTGCCTTAAAAGACATCAG
AAAATCCATACTGGAGAGAAACCTTACAAATGTAATGAGTGTGGCAAATCTTTTAACCGATTTGAAAGCCTTACAATACA
TCAGAAAATCCATACTGGAGAGAAACCTTACAAATGTAATGAGTGTGGTAAAGCCTTTATGGATGTTTCATACGTTACTC
GACATAAAAAAATCCATACTGGAGAGAAACCTTTCAAATGTAATGAGTGTGGCAAAACTTTTATGCAGGGTTCACATCTT
ACTCGACATAAGAAAATCCATACTGGAGAGAAACCTTACAAATGTAATGAGTGTGGCAAGGTCTGTAATCAAAAGTCAAA
CCTTGCAATTCATCAGAGAATTCATACTGGAGAGAAACCTTACAAATGTAATGAATGTGGCAAAGTGTTTGCTGAGCGTT
CAAGACTTACTCAGCATAAGAGAATCCATACTGGAGAGAAACCTTTCAAATGTACTGAGTGTGGCAAAACTTTTATG

ORF - retro_ecab_61 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 65.12 %
Parental protein coverage: 56.73 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalSNLTIHQRTHTGEKPYKCNECGKAFMERSSLTQHTRIHSGEKPYSCKECGKAFNQSSNLVIHQIIHTGEK
S.L..H.R.H....PYKCNECGKAF.....L..H..IH..EKPY.C...GK.F.Q.SNL..HQ...TGEK
RetrocopySYLSKHERIHSAQRPYKCNECGKAFNKCLNLSRHQKIHTREKPYNCDVGGKIFHQNSNLASHQRMDTGEK
ParentalPYKCNVCGKAFNVCSSLTRHQTIHTGEKPYKCTQCGKAFSHCSTLANHQRIHSDERPYKCNECGRAFNRF
PYKCN.C.KAF...S.LT.H...HTGEKPYKC..C.KAF..CS.L..H.RIH..E.PYKC.EC..AF...
RetrocopyPYKCNDCSKAFAKHSRLTQHKRVHTGEKPYKCNECSKAFARCSSLTQHKRIHTGEKPYKCSECSKAFAEH
ParentalSNLTRHQRIHTGEKPYKCNVCGKDFMIRSHLWSHERIHTGEKPYKCNECGKAFSERSNLAQHKRIHTGEK
S.LT.H.RIHTGEKPYKCN.C.K.F...S.L..H.RIHTGEKPYKCNEC.KAF...S.LAQHKRIHTGEK
RetrocopySKLTQHKRIHTGEKPYKCNECKKAFARHSSLTQHKRIHTGEKPYKCNECSKAFPRHSMLAQHKRIHTGEK
ParentalPYKCNECGKDFTTRSHLWGHERIHTGEKPYKCNECGKAFTGSSNLTQHKKIHTGEKPYKCTVCGKAFSQN
PYKCNEC.K.F..RS.L..H.RIH.GEKPYKC.EC.KAF...S.LTQHK.IHT.EKP.KC..CGK.FSQ.
RetrocopyPYKCNECSKSFAKRSRLTQHKRIHNGEKPYKCSECSKAFARHSGLTQHKIIHTEEKPCKCSKCGKVFSQK
ParentalSSLIVHQRIHTGEKPYKCHECGKAFKQSETLQRRTKIHTEERPYKCKECGKAFNRYSNFTIHQRIHTGEK
SSL..HQRIHTGEKPYKC.ECGK.F.....L.R..KIHT.E.PYKC.ECGK.FNR....TIHQ.IHTGEK
RetrocopySSLESHQRIHTGEKPYKCNECGKSFTHFVCLKRHQKIHTGEKPYKCNECGKSFNRFESLTIHQKIHTGEK
ParentalPYKCKECGQAFTWCSSLTIHQRIHTGEKPYKCKVCCKAFNQYSNLTKHQRIHTGEKPYKCKECCKAFTWY
PYKC.ECG.AF...S..T.H..IHTGEKP.KC..C.K.F.Q.S.LT.H..IHTGEKPYKC.EC.K.....
RetrocopyPYKCNECGKAFMDVSYVTRHKKIHTGEKPFKCNECGKTFMQGSHLTRHKKIHTGEKPYKCNECGKVCNQK
ParentalTSLTIHQRIHTGEKPYKCKEC-SIFNQYSYLTIHQRIHTGEKPYKCKECGKAF
..L.IHQRIHTGEKPYKC.EC...F...S.LT.H.RIHTGEKP.KC.ECGK.F
RetrocopySNLAIHQRIHTGEKPYKCNECGKVFAERSRLTQHKRIHTGEKPFKCTECGKTF

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
SRP021940_articular_cartilage 0 .53 RPM 2 .30 RPM
SRP021940_cerebellum 0 .16 RPM 1 .87 RPM
SRP021940_embryo 1 .51 RPM 4 .58 RPM
SRP021940_placental_villous 0 .05 RPM 1 .68 RPM
SRP021940_synovial_membrane 0 .00 RPM 2 .33 RPM
SRP021940_testis 0 .06 RPM 1 .92 RPM
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_61 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_61 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ecab_61 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 6 parental genes, and 7 retrocopies.

Species Parental gene accession Retrocopies number
Equus caballus ENSECAG00000023794 1 retrocopy
retro_ecab_61 ,
Macaca mulatta ENSMMUG000000036881 retrocopy
Otolemur garnettii ENSOGAG000000056431 retrocopy
Otolemur garnettii ENSOGAG000000296382 retrocopies
Pelodiscus sinensis ENSPSIG000000046881 retrocopy
Pelodiscus sinensis ENSPSIG000000081151 retrocopy



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