RetrogeneDB ID:

retro_mputfur_1300

Retrocopy
location
Organism:Ferret (Mustela putorius furo)
Coordinates:GL897073.1:2066601..2067529(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMPUG00000008562
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:Ldhb
Ensembl ID:ENSMPUG00000000172
Aliases:None
Description:lactate dehydrogenase B [Source:MGI Symbol;Acc:MGI:96763]


Retrocopy-Parental alignment summary:






>retro_mputfur_1300
AAACAAACTGTAGCGGGCATTGGACAAGTTGGTATGGCGTGTGCCATCAGCATTCTAGAAAAGTCTCTGGCTGATGAGCT
TGCCCTTATAGATGTTTTGGAAGATAAAGGCAAAATGATGGATCTGCAACATGAGAGCTTATTTCTTCAGACACCTAAAA
TTGTGGCAGATAAAGATTACTCTGTGATTGCCAATTCTAAGATTATAGCGGTGACCGCAGGAGTCCATCAGCAGGAGAGC
AAGAGCTGTCTCAATCTGGTGCAGAGGAATTTTAATGTCTTCAAATTCGTTATTCCCCAGATAGTCAAGTACAGTCCTGA
TTGTATCATAATTGTGGTTTCCAACCCAGTGGATATTCTCACATATGTTACCCGGAATCTAAGTGGGCTACCCAAGCACC
ATGTCATTGGAAGTGGGTGTAATCTGGGTTCTGCTAGATTTCACTATCTTATCCCTGAAAAACTTGTCATTCATTCCAGA
AGCTACCATCAATGGATTTGGGGAGAACATGGGGATTCAAATGTGGCTGCATGGAGTGGAGTCAATGTGGCAGGCATTTC
TCTCGGGAACTGAATCCAGAAATGGGAACAGGCAATGACAGTGAAAATCGTAAGGAAGTGGAGAAGATGGTGGTTAAAAG
TGCCTATGACATCATGAAGCTAAAAGGATGTACCAACTGGGGTGTTGGATTGAATGTGGCTGATATCATTGAATCCATGT
TGGAAAATCTATCCAGGATTCATCCAGTGTCAGTGATGGTAAAGGGAATATACAGCATGGAGAATGAAATCTTCCTGAGC
CTTCCATGTTTCCTGAAGTGTCAGGGATTAATCAATATGATCAAAAGAAGCTGAAGGACGACGAGGTTGCTCAGCTGAAA
AAAAGTGCACATACCTTGTGGGACATCCAGAAAGACCTAAAAGACTTG

ORF - retro_mputfur_1300 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 78.98 %
Parental protein coverage: 93.41 %
Number of stop codons detected: 0
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalKITVVGVGQVGMACAISILGKSLADELALVDVLEDKLKGEMMDLQHGSLFLQTPKIVADKDYSVTANSKI
K.TV.G.GQVGMACAISIL.KSLADELAL.DVLEDK..G.MMDLQH.SLFLQTPKIVADKDYSV.ANSKI
RetrocopyKQTVAGIGQVGMACAISILEKSLADELALIDVLEDK--GKMMDLQHESLFLQTPKIVADKDYSVIANSKI
ParentalVVVTAGVRQQEGESRLNLVQRNVNVFKFIIPQIVKYSPDCIIIVVSNPVDILTYVTWKLSGLPKHRVIGS
..VTAGV.QQE..S.LNLVQRN.NVFKF.IPQIVKYSPDCIIIVVSNPVDILTYVT..LSGLPKH.VIGS
RetrocopyIAVTAGVHQQESKSCLNLVQRNFNVFKFVIPQIVKYSPDCIIIVVSNPVDILTYVTRNLSGLPKHHVIGS
ParentalGCNLDSARFRYLMAEKLGIHPSSCHGWILGEHGDSSVAVWSGVNVAGVSL-QELNPDMGTDNDSENWKEV
GCNL.SARF.YL..EKL.IH..S.H.WI.GEHGDS.VA.WSGVNVAG.SL..ELNP.MGT.NDSEN.KEV
RetrocopyGCNLGSARFHYLIPEKLVIHSRSYHQWIWGEHGDSNVAAWSGVNVAGISL<RELNPEMGTGNDSENRKEV
ParentalHKMVVESAYEVIKLKGYTNWAIGLSVADLIESMLKNLSRIHPVSTMVKGMYGIENEVFLSLPCILNARGL
.KMVV.SAY...KLKG.TNW..GL.VAD.IESML.NLSRIHPVS.MVKG.Y..ENE.FLSLPC.L...GL
RetrocopyEKMVVKSAYDIMKLKGCTNWGVGLNVADIIESMLENLSRIHPVSVMVKGIYSMENEIFLSLPCFLKCQGL
ParentalTSVI-NQKLKDDEVAQLKKSADTLWDIQKDLKDL
...I...KLKDDEVAQLKKSA.TLWDIQKDLKDL
RetrocopyINMI<QKKLKDDEVAQLKKSAHTLWDIQKDLKDL

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






RNA-Seq - click to see more details

Mustela putorius furo was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Mustela putorius furo was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_mputfur_1300 retrocopy.

TSS - click to see more details

Mustela putorius furo was not studied using FANTOM5 data.

Lab - click to see more details

retro_mputfur_1300 was not experimentally validated.

Retrocopy orthology:
Mustela putorius furo 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 25 parental genes, and 73 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000161754 retrocopies
retro_amel_1316, retro_amel_814, retro_amel_882, retro_amel_977,
Bos taurus ENSBTAG000000196034 retrocopies
retro_btau_1589, retro_btau_303, retro_btau_451, retro_btau_647,
Canis familiaris ENSCAFG000000121959 retrocopies
retro_cfam_1068, retro_cfam_111, retro_cfam_1674, retro_cfam_17, retro_cfam_1700, retro_cfam_174, retro_cfam_1836, retro_cfam_701, retro_cfam_93,
Choloepus hoffmanni ENSCHOG000000076581 retrocopy
retro_chof_1145,
Cavia porcellus ENSCPOG000000071381 retrocopy
retro_cpor_762,
Dasypus novemcinctus ENSDNOG000000136204 retrocopies
retro_dnov_1161, retro_dnov_1511, retro_dnov_1570, retro_dnov_529,
Echinops telfairi ENSETEG000000199551 retrocopy
retro_etel_850,
Felis catus ENSFCAG000000126391 retrocopy
retro_fcat_462,
Homo sapiens ENSG000001117161 retrocopy
retro_hsap_4863,
Loxodonta africana ENSLAFG000000009722 retrocopies
retro_lafr_197, retro_lafr_315,
Macropus eugenii ENSMEUG000000048251 retrocopy
retro_meug_311,
Myotis lucifugus ENSMLUG000000121551 retrocopy
retro_mluc_202,
Macaca mulatta ENSMMUG000000026794 retrocopies
retro_mmul_212, retro_mmul_303, retro_mmul_308, retro_mmul_315,
Monodelphis domestica ENSMODG000000177861 retrocopy
retro_mdom_1484,
Mustela putorius furoENSMPUG00000000172 5 retrocopies
retro_mputfur_1300 , retro_mputfur_1561, retro_mputfur_492, retro_mputfur_539, retro_mputfur_549,
Mustela putorius furoENSMPUG000000137305 retrocopies
retro_mputfur_1256, retro_mputfur_133, retro_mputfur_1446, retro_mputfur_1476, retro_mputfur_1565,
Oryctolagus cuniculus ENSOCUG000000220151 retrocopy
retro_ocun_805,
Otolemur garnettii ENSOGAG000000047639 retrocopies
retro_ogar_1469, retro_ogar_2093, retro_ogar_2344, retro_ogar_2459, retro_ogar_3288, retro_ogar_3342, retro_ogar_3383, retro_ogar_689, retro_ogar_721,
Pongo abelii ENSPPYG000000043563 retrocopies
retro_pabe_1738, retro_pabe_1744, retro_pabe_3780,
Pan troglodytes ENSPTRG000000047621 retrocopy
retro_ptro_3237,
Pteropus vampyrus ENSPVAG000000024623 retrocopies
retro_pvam_1487, retro_pvam_320, retro_pvam_673,
Sorex araneus ENSSARG000000025651 retrocopy
retro_sara_713,
Sus scrofa ENSSSCG000000005761 retrocopy
retro_sscr_37,
Ictidomys tridecemlineatus ENSSTOG000000220582 retrocopies
retro_itri_501, retro_itri_648,
Tarsius syrichta ENSTSYG000000137597 retrocopies
retro_tsyr_1130, retro_tsyr_1532, retro_tsyr_1860, retro_tsyr_2051, retro_tsyr_334, retro_tsyr_64, retro_tsyr_986,


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