RetrogeneDB ID:

retro_mmus_197

Retrocopy
location
Organism:Mouse (Mus musculus)
Coordinates:16:46153713..46155012(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMUSG00000048087
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:Ahcy
Ensembl ID:ENSMUSG00000027597
Aliases:Ahcy, AA987153, AL024110, CuBP, SAHH
Description:S-adenosylhomocysteine hydrolase [Source:MGI Symbol;Acc:MGI:87968]


Retrocopy-Parental alignment summary:






>retro_mmus_197
ATGTCTGATAAACTGCCCTACAAAGTCGCGGACATCGGACTGGCCGCCTGGGGACGGAAGGCTCTGGATATAGCTGAGAA
TGAGATGCCAGGATTGATGCGCATGCGGGAGATGTACTCAGCCTCCAAGCCACTGAAGGGTGCTCGCATTGCTGGCTGCC
TGCACATGACCGTGGAGACTGCTGTTCTCATTGAGACTCTCGTGGCCCTGGGTGCTGAGGTGCGGTGGTCCAGCTGCAAC
ATCTTCTCTACTCAGGACCATGCAGCGGCTGCCATTGCCAAGGCTGGCATTCCAGTGTTTGCCTGGAAGGGCGAGACAGA
TGAGGAGTACCTGTGGTGCATTGAGCAGACGCTGCACTTCAAGGACGGACCCCTCAACATGATTCTGGATGATGGTGGTG
ACCTTACTAACCTCATCCACACCAAATACCCACAGCTTCTGTCAGGCATCCGAGGTATTTCTGAGGAGACCACAACTGGG
GTCCACAACCTCTACAAGATGATGTCCAATGGGATACTGAAGGTGCCTGCCATCAATGTCAACGATTCTGTCACCAAGAG
CAAGTTTGACAACCTCTATGGCTGCCGGGAGTCCCTCATAGATGGCATCAAACGGGCCACAGATGTGATGATTGCGGGCA
AGGTGGCGGTGGTGGCAGGCTATGGTGATGTGGGCAAGGGCTGTGCCCAGGCCCTGAGGGGTTTTGGGGCCCGAGTCATC
ATCACCGAGATCGACCCCATCAATGCACTGCAAGCTGCCATGGAGGGCTATGAGGTAACCACTATGGACGAAGCCTGTAA
GGAGGGCAACATCTTTGTCACCACCACAGGCTGTGTGGATATCATCCTTGGCCGGCACTTTGAGCAGATGAAGGATGACG
CCATTGTCTGTAACATTGGACACTTCGATGTGGAGATTGATGTGAAGTGGCTCAATGAGAACGCGGTGGAGAAAGTGAAC
ATCAAGCCCCAGGTGGACCGCTACTGGCTAAAGAATGGGCGCCGCATCATCTTGCTGGCTGAAGGCCGTCTGGTCAACCT
GGGTTGTGCTATGGGACACCCCAGCTTTGTGATGAGCAACTCCTTCACAAACCAGGTGATGGCACAGATTGAGCTGTGGA
CCCACCCAGATAAATACCCTGTTGGGGTTCACTTCCTGCCTAAGAAGCTGGATGAGGCGGTGGCTGAAGCCCACCTGGGC
AAGCTGAATGTGAAGCTGACCAAGCTGACTGAGAAGCAGGCCCAGTACCTGGGCATGCCCATCAACGGCCCCTTCAAGCC
TGATCACTACCGCTACTGA

ORF - retro_mmus_197 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 100.0 %
Parental protein coverage: 100.0 %
Number of stop codons detected: 0
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalMSDKLPYKVADIGLAAWGRKALDIAENEMPGLMRMREMYSASKPLKGARIAGCLHMTVETAVLIETLVAL
MSDKLPYKVADIGLAAWGRKALDIAENEMPGLMRMREMYSASKPLKGARIAGCLHMTVETAVLIETLVAL
RetrocopyMSDKLPYKVADIGLAAWGRKALDIAENEMPGLMRMREMYSASKPLKGARIAGCLHMTVETAVLIETLVAL
ParentalGAEVRWSSCNIFSTQDHAAAAIAKAGIPVFAWKGETDEEYLWCIEQTLHFKDGPLNMILDDGGDLTNLIH
GAEVRWSSCNIFSTQDHAAAAIAKAGIPVFAWKGETDEEYLWCIEQTLHFKDGPLNMILDDGGDLTNLIH
RetrocopyGAEVRWSSCNIFSTQDHAAAAIAKAGIPVFAWKGETDEEYLWCIEQTLHFKDGPLNMILDDGGDLTNLIH
ParentalTKYPQLLSGIRGISEETTTGVHNLYKMMSNGILKVPAINVNDSVTKSKFDNLYGCRESLIDGIKRATDVM
TKYPQLLSGIRGISEETTTGVHNLYKMMSNGILKVPAINVNDSVTKSKFDNLYGCRESLIDGIKRATDVM
RetrocopyTKYPQLLSGIRGISEETTTGVHNLYKMMSNGILKVPAINVNDSVTKSKFDNLYGCRESLIDGIKRATDVM
ParentalIAGKVAVVAGYGDVGKGCAQALRGFGARVIITEIDPINALQAAMEGYEVTTMDEACKEGNIFVTTTGCVD
IAGKVAVVAGYGDVGKGCAQALRGFGARVIITEIDPINALQAAMEGYEVTTMDEACKEGNIFVTTTGCVD
RetrocopyIAGKVAVVAGYGDVGKGCAQALRGFGARVIITEIDPINALQAAMEGYEVTTMDEACKEGNIFVTTTGCVD
ParentalIILGRHFEQMKDDAIVCNIGHFDVEIDVKWLNENAVEKVNIKPQVDRYWLKNGRRIILLAEGRLVNLGCA
IILGRHFEQMKDDAIVCNIGHFDVEIDVKWLNENAVEKVNIKPQVDRYWLKNGRRIILLAEGRLVNLGCA
RetrocopyIILGRHFEQMKDDAIVCNIGHFDVEIDVKWLNENAVEKVNIKPQVDRYWLKNGRRIILLAEGRLVNLGCA
ParentalMGHPSFVMSNSFTNQVMAQIELWTHPDKYPVGVHFLPKKLDEAVAEAHLGKLNVKLTKLTEKQAQYLGMP
MGHPSFVMSNSFTNQVMAQIELWTHPDKYPVGVHFLPKKLDEAVAEAHLGKLNVKLTKLTEKQAQYLGMP
RetrocopyMGHPSFVMSNSFTNQVMAQIELWTHPDKYPVGVHFLPKKLDEAVAEAHLGKLNVKLTKLTEKQAQYLGMP
ParentalINGPFKPDHYRY
INGPFKPDHYRY
RetrocopyINGPFKPDHYRY

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
SRP007412_brain 0 .16 RPM 4 .77 RPM
SRP007412_cerebellum 0 .48 RPM 3 .21 RPM
SRP007412_heart 0 .06 RPM 6 .63 RPM
SRP007412_kidney 2 .52 RPM 38 .21 RPM
SRP007412_liver 19 .85 RPM 355 .17 RPM
SRP007412_testis 0 .14 RPM 2 .52 RPM

ChIP-Seq - click to see more details

RNA Polymerase II activity near the 5' end of retro_mmus_197 was not detected

EST - click to see more details

No EST(s) were mapped for retro_mmus_197 retrocopy.

TSS - click to see more details

No TSS is located nearby retro_mmus_197 retrocopy 5' end.

Lab - click to see more details

retro_mmus_197 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmus_197 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 18 parental genes, and 61 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000181011 retrocopy
retro_btau_1140,
Canis familiaris ENSCAFG000000075042 retrocopies
retro_cfam_1486, retro_cfam_552,
Callithrix jacchus ENSCJAG000000183037 retrocopies
retro_cjac_1028, retro_cjac_1248, retro_cjac_1806, retro_cjac_2132, retro_cjac_2839, retro_cjac_3287, retro_cjac_480,
Echinops telfairi ENSETEG000000025761 retrocopy
retro_etel_444,
Homo sapiens ENSG000001014446 retrocopies
retro_hsap_1496, retro_hsap_2325, retro_hsap_2365, retro_hsap_4213, retro_hsap_571, retro_hsap_803,
Gorilla gorilla ENSGGOG000000146945 retrocopies
retro_ggor_1148, retro_ggor_1795, retro_ggor_2822, retro_ggor_3087, retro_ggor_511,
Monodelphis domestica ENSMODG000000027531 retrocopy
retro_mdom_1974,
Mus musculus ENSMUSG00000027597 1 retrocopy
retro_mmus_197 ,
Nomascus leucogenys ENSNLEG000000100414 retrocopies
retro_nleu_1717, retro_nleu_2785, retro_nleu_40, retro_nleu_929,
Oryctolagus cuniculus ENSOCUG000000085921 retrocopy
retro_ocun_1886,
Otolemur garnettii ENSOGAG000000167873 retrocopies
retro_ogar_3223, retro_ogar_3401, retro_ogar_3402,
Pongo abelii ENSPPYG000000109359 retrocopies
retro_pabe_1247, retro_pabe_1978, retro_pabe_2108, retro_pabe_2189, retro_pabe_3446, retro_pabe_647, retro_pabe_658, retro_pabe_665, retro_pabe_718,
Pan troglodytes ENSPTRG000000134147 retrocopies
retro_ptro_1015, retro_ptro_1698, retro_ptro_1730, retro_ptro_2860, retro_ptro_3011, retro_ptro_559, retro_ptro_771,
Rattus norvegicus ENSRNOG000000177777 retrocopies
retro_rnor_1142, retro_rnor_1820, retro_rnor_1903, retro_rnor_2120, retro_rnor_569, retro_rnor_647, retro_rnor_839,
Sus scrofa ENSSSCG000000072781 retrocopy
retro_sscr_119,
Tarsius syrichta ENSTSYG000000071633 retrocopies
retro_tsyr_1178, retro_tsyr_1529, retro_tsyr_1582,
Tursiops truncatus ENSTTRG000000036321 retrocopy
retro_ttru_1666,
Xenopus tropicalis ENSXETG000000194861 retrocopy
retro_xtro_62,


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