RetrogeneDB ID:

retro_ecab_400

Retrocopy
location
Organism:Horse (Equus caballus)
Coordinates:17:60137129..60137819(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSECAG00000003783
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:UCHL3
Ensembl ID:ENSECAG00000024190
Aliases:None
Description:ubiquitin carboxyl-terminal esterase L3 (ubiquitin thiolesterase) [Source:HGNC Symbol;Acc:12515]


Retrocopy-Parental alignment summary:






>retro_ecab_400
ATGGAGGGTCAGCGCTGGCTCCCGTTGGAGGCCAATCCCGAGGTCACCAACCAGTTTCTCAAACAATTAGGTCTACATCC
TAACTGGCAGTTTGTTGATGTATATGGAATGGATCCTGAACTCCTTAGCATGGTTCCACGGCCAGTGTGCGCAGTGTTAC
TTCTCTTCCCTATTACAGAAAAGTATGAAGTATTCAGAACAGAAGAGGAGGAAAAAATAAAATCTCAGGGACAAGATGTT
ACATCATCAGTATATTTCATGAAGCAAACAATCAGCAATGCCTGTGGAACAATTGGACTGATCCATGCTATTGCCAACAA
TAAAGACAAGATGCACTTTGAATCTGGATCAACCTTGAAAAAATTCCTGGAGGAGTCTGTGTCCATGAGCCCTGAAGAAC
GAGCCAGATACCTGGAGAACTATGACGCTATTCGAGTTACTCACGAGACCAGTGCCCATGAAGGTCAGACTGAGGCCCCG
AGTCCAGATGAAAAGGTAGACCTTCATTTCATTGCGTTAGTTCACGTGGATGGGCATCTCTATGAATTAGATGGACGGAA
ACCATTTCCAATTAATCACGGGGAAACTAGTGATGAAACTTTATTAGAGGATGCCATAGAAGTTTGCAAGAAGTTTATGG
AACGTGACCCTGATGAATTAAGATTCAATGCAATTGCTCTTTCTGCAGCA

ORF - retro_ecab_400 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 100. %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMEGQRWLPLEANPEVTNQFLKQLGLHPNWQFVDVYGMDPELLSMVPRPVCAVLLLFPITEKYEVFRTEEE
MEGQRWLPLEANPEVTNQFLKQLGLHPNWQFVDVYGMDPELLSMVPRPVCAVLLLFPITEKYEVFRTEEE
RetrocopyMEGQRWLPLEANPEVTNQFLKQLGLHPNWQFVDVYGMDPELLSMVPRPVCAVLLLFPITEKYEVFRTEEE
ParentalEKIKSQGQDVTSSVYFMKQTISNACGTIGLIHAIANNKDKMHFESGSTLKKFLEESVSMSPEERARYLEN
EKIKSQGQDVTSSVYFMKQTISNACGTIGLIHAIANNKDKMHFESGSTLKKFLEESVSMSPEERARYLEN
RetrocopyEKIKSQGQDVTSSVYFMKQTISNACGTIGLIHAIANNKDKMHFESGSTLKKFLEESVSMSPEERARYLEN
ParentalYDAIRVTHETSAHEGQTEAPSPDEKVDLHFIALVHVDGHLYELDGRKPFPINHGETSDETLLEDAIEVCK
YDAIRVTHETSAHEGQTEAPSPDEKVDLHFIALVHVDGHLYELDGRKPFPINHGETSDETLLEDAIEVCK
RetrocopyYDAIRVTHETSAHEGQTEAPSPDEKVDLHFIALVHVDGHLYELDGRKPFPINHGETSDETLLEDAIEVCK
ParentalKFMERDPDELRFNAIALSAA
KFMERDPDELRFNAIALSAA
RetrocopyKFMERDPDELRFNAIALSAA

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 .00 RPM 0 .24 RPM
SRP021940_cerebellum 0 .10 RPM 0 .62 RPM
SRP021940_embryo 0 .20 RPM 0 .82 RPM
SRP021940_placental_villous 1 .49 RPM 4 .14 RPM
SRP021940_synovial_membrane 0 .33 RPM 0 .80 RPM
SRP021940_testis 0 .70 RPM 1 .60 RPM
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_400 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_400 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ecab_400 has 0 orthologous retrocopies within eutheria group .


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

Species Parental gene accession Retrocopies number
Cavia porcellus ENSCPOG000000122611 retrocopy
Equus caballus ENSECAG00000024190 1 retrocopy
retro_ecab_400 ,
Myotis lucifugus ENSMLUG000000034421 retrocopy
Mus musculus ENSMUSG000000221111 retrocopy
Oryctolagus cuniculus ENSOCUG000000067891 retrocopy
Otolemur garnettii ENSOGAG000000171141 retrocopy
Rattus norvegicus ENSRNOG000000095301 retrocopy



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