RetrogeneDB ID:

retro_etel_2178

Retrocopy
location
Organism:Lesser hedgehog tenrec (Echinops telfairi)
Coordinates:scaffold_89011:2..1294(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSETEG00000017751
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:CAPRIN1
Ensembl ID:ENSETEG00000009308
Aliases:None
Description:cell cycle associated protein 1 [Source:HGNC Symbol;Acc:6743]


Retrocopy-Parental alignment summary:






>retro_etel_2178
ACTGACTTGAAGCAAGGCTTGAATGGCGTGCCGATATTCTCTGAAGAGGAATTGACCTTGTTGGATGATTTCTACAAACG
AGTGGACCCTGACCGAGACGTGAGCTTAAGATTGAATGAGCAGTGTGAGCATGTCTCCGTTCACCTGTGGGACCTGCTGG
AGGGGAAGGAAAATCTGTATGTGGAACAAGCTAGAAAGCACTAAAGGAAATTGTTGAGCGGGTTTTTCAGTCAAACTACT
TTGACAGTACCCACAACCACCAAAATGGGTTATGTGAGGAAGAGGAGGCTGCCTCAACACCCACATTGAAGACCAGGGAG
CTGAAGCTGAACCCGAGCCAGCAGAGGCATACACTGAACAGAATGAAGTTGAATCAACAGAGTAGTACGTAAATAGACAA
TGTATGGCAGAAACACCGTTCTGCAGTGGTGAAAAAGAGCAAGTAGATGAGTGGTCAGTTGAACCAGTTGAGGTAGTAAA
TTCACTCCAACAGCAACCACAGGCTGCATGTCCTTCAGTACCAGAGCCCCACACTTTGACTCCAGTGGCTCAGGCAGATC
CCCTCGTGAGAAGACAGCGAGTACAAGACCTTATGGCACAAATGCAGGGGCTGTATAATTTCATTCAGGAATCTATGTTG
GATTTTGAAATCCAGACACTGGATCCTGCCATTGTATCTGCACAGCCCATGAATCCTACACAAAACCTGGACGTGTCCCA
GCTTGTGTGTCCTCCAGTTCATTCTGAATCCAGACTTGCTCAAGCTAATCAAGTTCCCGTACAACCCGAAGCTACCCAGG
TTCCTTCGGTTTCATCCACAAGTGAAGGGTACACATCATCTCAGCCCTCGTATCAGCCTTCTCATGCTGCAGAGCTGCGA
CCACAAAAGGAACTGATTGACCAGTTTCAGGCAACGATCTCTTTAAATACAGACCAGACTACAGCATCATCATCCCTTCC
AGCTGCATCTCAGCTTCAGGTGTTCCAGGCTGGGACAAGCAAACCTTTGCACAGCAGTGGAATCAATGTGAATGCAGCTC
CATTCCAGACCATGCAGACGGTGTTTAATATGAATGCCCCAGTACCTCCTGTTAATGAACCAGAGACTTTGAAGCAGCAA
AGTCAGTACCAAGCCAGTTATAACCACCAGAGCTTTTCCAATCAACCTCACCAAGTAGAACAAACAGAGCTTCAGCAAGA
ACAGCTTCAAACAGTGGTCGGCACTTACCATGGTTCCCAGGACCAGCCCCATCAAGTGACTGGCAACCATCAGCGGCCTC
CCCCAGCAGAAT

ORF - retro_etel_2178 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 89.93 %
Parental protein coverage: 67.5 %
Number of stop codons detected: 2
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalTDLKQGLNGVPILSEEELTLLDDFYKLVDPERDMSLRLNEQYEHASVHLWDLLEGKE-KSVCGTTYKALK
TDLKQGLNGVPI.SEEELTLLDDFYK.VDP.RD.SLRLNEQ.EH.SVHLWDLLEGKE.KSVCGT..KALK
RetrocopyTDLKQGLNGVPIFSEEELTLLDDFYKRVDPDRDVSLRLNEQCEHVSVHLWDLLEGKE<KSVCGTS*KALK
ParentalEIVERVFQSNYFDSTHNHQNGLCEEEEAASAPA-IEEQGAEAEPEPAEEYTEQNEVESTE-YVNRQFMAE
EIVERVFQSNYFDSTHNHQNGLCEEEEAAS.P..IE.QGAEAEPEPAE.YTEQNEVESTE.YVNRQ.MAE
RetrocopyEIVERVFQSNYFDSTHNHQNGLCEEEEAASTPT<IEDQGAEAEPEPAEAYTEQNEVESTE*YVNRQCMAE
ParentalTQFSSGEKEQVDEWTVETVEVVNSLQQQPQAASPSVPEPHTLTPVAQADPLVRRQRVQDLMAQMQGPYNF
T.F.SGEKEQVDEW.VE.VEVVNSLQQQPQAA.PSVPEPHTLTPVAQADPLVRRQRVQDLMAQMQG.YNF
RetrocopyTPFCSGEKEQVDEWSVEPVEVVNSLQQQPQAACPSVPEPHTLTPVAQADPLVRRQRVQDLMAQMQGLYNF
ParentalIQDSMLDFENQTLDPAIVSAQPMNPTQNMDMPQLVCPPVHSESRLAQPNQVPVQPEATQVPLVSSTSEGY
IQ.SMLDFE.QTLDPAIVSAQPMNPTQN.D..QLVCPPVHSESRLAQ.NQVPVQPEATQVP.VSSTSEGY
RetrocopyIQESMLDFEIQTLDPAIVSAQPMNPTQNLDVSQLVCPPVHSESRLAQANQVPVQPEATQVPSVSSTSEGY
ParentalTSSQPLYQSSHATEQRPQKEPIDQIQASSATISLNTDQTTTSSSLPAASQPQVFQAGTSKPLHSSGINVN
TSSQP.YQ.SHA.E.RPQKE.IDQ.QA...TISLNTDQTT.SSSLPAASQ.QVFQAGTSKPLHSSGINVN
RetrocopyTSSQPSYQPSHAAELRPQKELIDQFQA---TISLNTDQTTASSSLPAASQLQVFQAGTSKPLHSSGINVN
ParentalAAPFQSMQTVFNMNAPVPPVNEPETLKQQSQYQASYN-QSFSNQPHQVEQTELQQEQLQTVVGTYHGSQD
AAPFQ.MQTVFNMNAPVPPVNEPETLKQQSQYQASYN.QSFSNQPHQVEQTELQQEQLQTVVGTYHGSQD
RetrocopyAAPFQTMQTVFNMNAPVPPVNEPETLKQQSQYQASYNHQSFSNQPHQVEQTELQQEQLQTVVGTYHGSQD
ParentalQPHQVTGNHQQP-PQQN
QPHQVTGNHQ.P.PQQN
RetrocopyQPHQVTGNHQRP>PQQN

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






RNA-Seq - click to see more details

Echinops telfairi was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Echinops telfairi was not studied using ChIP-Seq data.

EST - click to see more details

Echinops telfairi was not studied using EST data.

TSS - click to see more details

Echinops telfairi was not studied using FANTOM5 data.

Lab - click to see more details

retro_etel_2178 was not experimentally validated.

Retrocopy orthology:
Echinops telfairi 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 1 parental gene, and 1 retrocopy.

Species Parental gene accession Retrocopies number
Echinops telfairi ENSETEG00000009308 1 retrocopy
retro_etel_2178 ,




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