RetrogeneDB ID:

retro_btau_301

Retrocopy
location
Organism:Cow (Bos taurus)
Coordinates:1:71900077..71900602(-)
Located in intron of:ENSBTAG00000047856
Retrocopy
information
Ensembl ID:ENSBTAG00000038422
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:FTL
Ensembl ID:ENSBTAG00000013343
Aliases:None
Description:Ferritin light chain [Source:UniProtKB/Swiss-Prot;Acc:O46415]


Retrocopy-Parental alignment summary:






>retro_btau_301
ATGAGCTCCCAGATTCGTCAGAATTATTCTGCCGAGGTGGAGGCCACAGTCAACCGCCTGGTTAACATGCAACTGCGGGC
CTCCTACACCTACCTCTCTCTGGGCTTCTATTTCGACCGCGACAGTGTGGCCCTGGAGGGTGTGGGTCACTTTTTTCGCA
AATTGGCCAAGAAGAAGCGCAAGGGCGCAGAGCATCTCTTGAAACTGCAAAACCAGCGTGGCGGCCACGCCCTCTTCCTG
GACATGCAGAAGCCATCTCAATATGAGTGGGGTAAAACCCAGGACGCTATGGAAGCCACCCTTCTAGTAGAGAAGAACCT
GAATCAAGCCCTGTTGGATCTGCATGGCCTGGCTTCTGCCCGCGGAGACCCCCACATCTGTGACTTCCTGGAGAACCGTT
TCCTAGATGAGGAAGTGAAACTAATCAAGAAGATGGGTGACCACCTGACCAACCTCCACAGGCTGGCTGGTCCCCAGGCT
GGGTTGGGCGAGTATCTCTTCGAAAGGCTCACCCTCAAGCATGAC

ORF - retro_btau_301 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 92.57 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMSSQIRQNYSTEVEAAVNRLVNMQLRASYTYLSLGFYFDRDDVALEGVGHFFRELAKEKREGAERLLKLQ
MSSQIRQNYS.EVEA.VNRLVNMQLRASYTYLSLGFYFDRD.VALEGVGHFFR.LAK.KR.GAE.LLKLQ
RetrocopyMSSQIRQNYSAEVEATVNRLVNMQLRASYTYLSLGFYFDRDSVALEGVGHFFRKLAKKKRKGAEHLLKLQ
ParentalNQRGGRALFLDVQKPSQDEWGKTQDAMEAALLVEKNLNQALLDLHGLASARGDPHICDFLENHFLDEEVK
NQRGG.ALFLD.QKPSQ.EWGKTQDAMEA.LLVEKNLNQALLDLHGLASARGDPHICDFLEN.FLDEEVK
RetrocopyNQRGGHALFLDMQKPSQYEWGKTQDAMEATLLVEKNLNQALLDLHGLASARGDPHICDFLENRFLDEEVK
ParentalLIKKMGDHLTNLRRLAGPQAGLGEYLFERLTLKHD
LIKKMGDHLTNL.RLAGPQAGLGEYLFERLTLKHD
RetrocopyLIKKMGDHLTNLHRLAGPQAGLGEYLFERLTLKHD

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
ERP005899_liver 0 .07 RPM 390 .62 RPM
ERP005899_muscle 0 .26 RPM 611 .77 RPM
SRP017611_brain 0 .05 RPM 125 .16 RPM
SRP017611_kidney 0 .24 RPM 646 .36 RPM
SRP017611_liver 0 .45 RPM 1119 .34 RPM
SRP030211_testis 0 .07 RPM 141 .94 RPM
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_301 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_301 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_btau_301 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 35 parental genes, and 540 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG0000001458227 retrocopies
Bos taurus ENSBTAG0000001118410 retrocopies
Bos taurus ENSBTAG00000013343 33 retrocopies
Canis familiaris ENSCAFG000000038611 retrocopy
Callithrix jacchus ENSCJAG0000000025013 retrocopies
Cavia porcellus ENSCPOG000000205581 retrocopy
Dasypus novemcinctus ENSDNOG000000024559 retrocopies
Dasypus novemcinctus ENSDNOG000000041265 retrocopies
Dasypus novemcinctus ENSDNOG0000000557736 retrocopies
Dasypus novemcinctus ENSDNOG000000078482 retrocopies
Dasypus novemcinctus ENSDNOG000000166838 retrocopies
Dipodomys ordii ENSDORG000000155505 retrocopies
Felis catus ENSFCAG0000000334837 retrocopies
Homo sapiens ENSG0000008708611 retrocopies
Gorilla gorilla ENSGGOG000000119999 retrocopies
Loxodonta africana ENSLAFG0000003124811 retrocopies
Microcebus murinus ENSMICG000000018617 retrocopies
Macaca mulatta ENSMMUG000000039099 retrocopies
Mustela putorius furoENSMPUG0000000330429 retrocopies
Mus musculus ENSMUSG000000507081 retrocopy
Nomascus leucogenys ENSNLEG0000000471610 retrocopies
Oryctolagus cuniculus ENSOCUG000000000146 retrocopies
Ochotona princeps ENSOPRG0000000249210 retrocopies
Procavia capensis ENSPCAG000000132276 retrocopies
Pongo abelii ENSPPYG0000001022311 retrocopies
Pan troglodytes ENSPTRG0000001126811 retrocopies
Pteropus vampyrus ENSPVAG0000000957025 retrocopies
Rattus norvegicus ENSRNOG000000208437 retrocopies
Sorex araneus ENSSARG0000001174112 retrocopies
Sus scrofa ENSSSCG0000000315333 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000206397 retrocopies
Tupaia belangeri ENSTBEG0000000531113 retrocopies
Tarsius syrichta ENSTSYG0000001398856 retrocopies
Tursiops truncatus ENSTTRG0000000125266 retrocopies
Vicugna pacos ENSVPAG000000055093 retrocopies



Copyright © RetrogeneDB 2014-2017