RetrogeneDB ID:

retro_shar_120

Retrocopy
location
Organism:Tasmanian devil (Sarcophilus harrisii)
Coordinates:GL834424.1:1527132..1528227(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSSHAG00000014591
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:ACTB
Ensembl ID:ENSSHAG00000012694
Aliases:None
Description:actin, beta [Source:HGNC Symbol;Acc:132]


Retrocopy-Parental alignment summary:






>retro_shar_120
AACGGCTCGGGCATGTGCAAGGCCGGCTTCGCCGGAGACGACGCGCCGCGGGCCGTGTTCCCTTCCATCGTGGGCCGCCC
CCGGCACCAGGGCGTCATGGTGGGCATGGGCCAGAAGGACAGCTACGTGGGCGACGAGGCCCAGAGCAAAAGGGGCATCC
TGACCCTCAAGTACCCCATCGAGCACGGCATCGTCACCAACTGGGACGACATGGAGAAGATCTGGCACCACACCTTCTAC
AACGAGCTCCGAGTGGCCCCCGAGGAGCACCCTGTGCTGCTGACCGAGGCGCCTCTGAATCCCAAGGCCAACAGGGAGAA
GATGACCCAGATCATGTTCGAGACCTTCAACACCCCCGCCATGTACGTGGCCATCCAGGCCGTGCTGTCTCTCTACGCTT
CTGGCCGCACCACGGGGATCGTGATGGACTCCGGGGACGGCGTCACCCACACCGTTCCCATCTACGAAGGGTACGCTCTC
CCCCACGCCATCCTGCGGCTTGACCTGGCCGGGCGCGACCTCACCGACTACCTCATGAAGATTTTGACCGAAAGAGGCTA
CAGCTTCACCACCACGGCCGAGAGGGAGATCGTGAGGGATGTCAAAGAGAAGCTGTGTTATGTTGCCCTGGACTTCGAGC
AAGAGATGGCCACCGCGGCTTCTTCCTCCTCCCTGGAGAAGAGCTACGAGCTCCCTGATGGTCAAGTCATCACCATCGGC
AATGAGAGGTTCCGATGCCCAGAATCTATCTTCCAGCCTTCTTTCCTGGGAATGGAGTCCTGCGGGATCCACGAGACCAC
CTACAATTCCATTATGAAGTGTGATGTGGACATCCGGAAGGATCTCTACGCTAATACGGTGTTGTCTGGCGGTACCACCA
TGTATCCTGGCATTGCTGACAGAATGCAGAAGGAGATCACAGCCCTGGCTCCAAGCACAATGAAAATAAAAATCATTGCC
CCACCTGAACGCAAATACTCCGTCTGGATTGGAGGTTCCATCCTGGCCTCTCTCTCTACCTTCCAGCAGATGTGGATCAG
CAAGCAGGAATATGATGAATCTGGTCCTTCTATTGTCCACCGGAAATGCTTTTAA

ORF - retro_shar_120 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 98.9 %
Parental protein coverage: 97.07 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQSKRGILTLKYPIEHGIVTNWDD
NGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQSKRGILTLKYPIEHGIVTNWDD
RetrocopyNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQSKRGILTLKYPIEHGIVTNWDD
ParentalMEKIWHHTFYNELRVAPEEHPVLLTEAPLNPKANREKMTQIMFETFNTPAMYVAIQAVLSLYASGRTTGI
MEKIWHHTFYNELRVAPEEHPVLLTEAPLNPKANREKMTQIMFETFNTPAMYVAIQAVLSLYASGRTTGI
RetrocopyMEKIWHHTFYNELRVAPEEHPVLLTEAPLNPKANREKMTQIMFETFNTPAMYVAIQAVLSLYASGRTTGI
ParentalVMDSGDGVTHTVPIYEGYALPHAILRLDLAGRDLTDYLMKILTERGYSFTTTAEREIVRDIKEKLCYVAL
VMDSGDGVTHTVPIYEGYALPHAILRLDLAGRDLTDYLMKILTERGYSFTTTAEREIVRD.KEKLCYVAL
RetrocopyVMDSGDGVTHTVPIYEGYALPHAILRLDLAGRDLTDYLMKILTERGYSFTTTAEREIVRDVKEKLCYVAL
ParentalDFEQEMATAASSSSLEKSYELPDGQVITIGNERFRCPEALFQPSFLGMESCGIHETTFNSIMKCDVDIRK
DFEQEMATAASSSSLEKSYELPDGQVITIGNERFRCPE..FQPSFLGMESCGIHETT.NSIMKCDVDIRK
RetrocopyDFEQEMATAASSSSLEKSYELPDGQVITIGNERFRCPESIFQPSFLGMESCGIHETTYNSIMKCDVDIRK
ParentalDLYANTVLSGGTTMYPGIADRMQKEITALAPSTMKIKIIAPPERKYSVWIGGSILASLSTFQQMWISKQE
DLYANTVLSGGTTMYPGIADRMQKEITALAPSTMKIKIIAPPERKYSVWIGGSILASLSTFQQMWISKQE
RetrocopyDLYANTVLSGGTTMYPGIADRMQKEITALAPSTMKIKIIAPPERKYSVWIGGSILASLSTFQQMWISKQE
ParentalYDESGPSIVHRKCF
YDESGPSIVHRKCF
RetrocopyYDESGPSIVHRKCF

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






Sarcophilus harrisii was not studied using RNA-Seq expression data.
Sarcophilus harrisii was not studied using ChIP-Seq data.
Sarcophilus harrisii was not studied using EST data.
Sarcophilus harrisii was not studied using FANTOM5 data.
retro_shar_120 was not experimentally validated.

Retrocopy orthology:
Sarcophilus harrisii 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 20 parental genes, and 88 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000066011 retrocopy
Cavia porcellus ENSCPOG000000134671 retrocopy
Homo sapiens ENSG000000756246 retrocopies
Gallus gallus ENSGALG000000096211 retrocopy
Gorilla gorilla ENSGGOG0000000113318 retrocopies
Loxodonta africana ENSLAFG000000091671 retrocopy
Meleagris gallopavo ENSMGAG000000039602 retrocopies
Macaca mulatta ENSMMUG000000111531 retrocopy
Mustela putorius furoENSMPUG000000166122 retrocopies
Mus musculus ENSMUSG000000295807 retrocopies
Ornithorhynchus anatinus ENSOANG000000077162 retrocopies
Otolemur garnettii ENSOGAG000000083481 retrocopy
Petromyzon marinus ENSPMAG000000041611 retrocopy
Pongo abelii ENSPPYG0000001733623 retrocopies
Rattus norvegicus ENSRNOG0000003425410 retrocopies
Sarcophilus harrisii ENSSHAG00000012694 4 retrocopies
Sus scrofa ENSSSCG000000075851 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000068682 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000147973 retrocopies
Xenopus tropicalis ENSXETG000000251161 retrocopy



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