RetrogeneDB ID:

retro_hsap_581

Retrocopy
location
Organism:Human (Homo sapiens)
Coordinates:10:69510041..69510987(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSG00000213606
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:AKR1B10
Ensembl ID:ENSG00000198074
Aliases:AKR1B10, AKR1B11, AKR1B12, ALDRLn, ARL-1, ARL1, HIS, HSI
Description:aldo-keto reductase family 1, member B10 (aldose reductase) [Source:HGNC Symbol;Acc:382]


Retrocopy-Parental alignment summary:






>retro_hsap_581
ATGGCCATCTTTGTGGAGCTCAATACCAAAGCCAAGATGCCCATTGTGGGCCTGGGCACTTGGAAGTCTCCTCTCGGCAA
AGTGAAAGAAGTGGTGAAGGTGGCCATTGATGCAGGATATCGCCACATTGACTGTGCCTATGTCTATCAGAATGAACATG
AGGTGGGGGAAGCCATCCAAGAGAAGATCCAAGAGAAGGCTGTAAAGCGGGAGGACCTCTTCATCATCAACAAGTTGTGG
CCCACTTTCTTTGAGAGACCCCTTGTGAGGAAAGCCTTTGAGAAGACCCTCAAGGATCTGAAGCTGAGTTATCTGGATGT
CTATCTTATTCACTAGCACAGGGATACAAGTCTGGGGATGATTTTTTCCGCAAAGATGATAAAGGTAATATGATCGGTGG
AAAAGCAATGTTCTTGGATGCCTGGGAGGCCATGGAGGAGCTGGTGGATGAGGGGCTGGTGAAAGCCCTTGGGGTCTCCA
ATTTCAACCACTTCCAGATAGAGAGGCTCTTGAACAAACCTGGACTGAAATATAAACCAGTGACTAACCAGGTTGAGTGT
CACCCATACCTCACACAGGAGAAACTGATCCAGTACTGCCACTCCAAGGGCATCACCATTATGGCCTACAGCCCCCTAGG
CTCTCCGGATAGACTTTGGGCCAAGCCAGAGGACCCTTCCCTGCTGGAGGATCCCAAGATTAAGGAGATTGCTGCAAGGC
ACAAAAAACCACAGCCCAGGTTCTGATCCATTTCCATATCCAGAGGAATGTGACTGTGATCCCCAAGTCTGTGACACCAG
CACGCATTGTTGAGAACATTCAGGCCTTTGACTTTACATTGAATGATGAGGAGATGGCAACCACACTCAGCTTCAACAGA
AACTGGAGGGCCCGTAACATGTTGCAATCCTCTCATTTGGAGGACTATCCCTTCGATGCAGAATAT

ORF - retro_hsap_581 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 90.57 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMATFVELSTKAKMPIVGLGTWKSPLGKVKEAVKVAIDAGYRHIDCAYVYQNEHEVGEAIQEKIQEKAVKR
MA.FVEL.TKAKMPIVGLGTWKSPLGKVKE.VKVAIDAGYRHIDCAYVYQNEHEVGEAIQEKIQEKAVKR
RetrocopyMAIFVELNTKAKMPIVGLGTWKSPLGKVKEVVKVAIDAGYRHIDCAYVYQNEHEVGEAIQEKIQEKAVKR
ParentalEDLFIVSKLWPTFFERPLVRKAFEKTLKDLKLSYLDVYLIH-WPQGFKSGDDLFPKDDKGNAIGGKATFL
EDLFI..KLWPTFFERPLVRKAFEKTLKDLKLSYLDVYLIH...QG.KSGDD.F.KDDKGN.IGGKA.FL
RetrocopyEDLFIINKLWPTFFERPLVRKAFEKTLKDLKLSYLDVYLIH<LAQGYKSGDDFFRKDDKGNMIGGKAMFL
ParentalDAWEAMEELVDEGLVKALGVSNFSHFQIEKLLNKPGLKYKPVTNQVECHPYLTQEKLIQYCHSKGITVTA
DAWEAMEELVDEGLVKALGVSNF.HFQIE.LLNKPGLKYKPVTNQVECHPYLTQEKLIQYCHSKGIT..A
RetrocopyDAWEAMEELVDEGLVKALGVSNFNHFQIERLLNKPGLKYKPVTNQVECHPYLTQEKLIQYCHSKGITIMA
ParentalYSPLGSPDRPWAKPEDPSLLEDPKIKEIAAKHK-KTAAQVLIRFHIQRNVIVIPKSVTPARIVENIQVFD
YSPLGSPDR.WAKPEDPSLLEDPKIKEIAA.HK.KT.AQVLI.FHIQRNV.VIPKSVTPARIVENIQ.FD
RetrocopyYSPLGSPDRLWAKPEDPSLLEDPKIKEIAARHK<KTTAQVLIHFHIQRNVTVIPKSVTPARIVENIQAFD
ParentalFKLSDEEMATILSFNRNWRACNVLQSSHLEDYPFNAEY
F.L.DEEMAT.LSFNRNWRA.N.LQSSHLEDYPF.AEY
RetrocopyFTLNDEEMATTLSFNRNWRARNMLQSSHLEDYPFDAEY

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
bodymap2_adipose 0 .00 RPM 0 .16 RPM
bodymap2_adrenal 0 .00 RPM 0 .10 RPM
bodymap2_brain 0 .05 RPM 0 .00 RPM
bodymap2_breast 0 .00 RPM 0 .06 RPM
bodymap2_colon 0 .00 RPM 1 .74 RPM
bodymap2_heart 0 .00 RPM 0 .09 RPM
bodymap2_kidney 0 .00 RPM 6 .00 RPM
bodymap2_liver 0 .00 RPM 4 .25 RPM
bodymap2_lung 0 .00 RPM 0 .46 RPM
bodymap2_lymph_node 0 .00 RPM 0 .37 RPM
bodymap2_ovary 0 .00 RPM 0 .77 RPM
bodymap2_prostate 0 .00 RPM 19 .36 RPM
bodymap2_skeletal_muscle 0 .00 RPM 0 .89 RPM
bodymap2_testis 0 .00 RPM 0 .90 RPM
bodymap2_thyroid 0 .00 RPM 3 .84 RPM
bodymap2_white_blood_cells 0 .00 RPM 0 .00 RPM

ChIP-Seq - click to see more details

RNA Polymerase II actvity near the 5' end of retro_hsap_581 was not detected

EST - click to see more details

No EST(s) were mapped for retro_hsap_581 retrocopy.

TSS - click to see more details

No TSS is located nearby retro_hsap_581 retrocopy 5' end.

Lab - click to see more details

retro_hsap_581 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_hsap_581 has 2 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Pan troglodytes retro_ptro_428
Macaca mulatta retro_mmul_2455
Parental genes homology:
Parental genes homology involve 16 parental genes, and 27 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG000000001661 retrocopy
retro_chof_400,
Callithrix jacchus ENSCJAG000000122501 retrocopy
retro_cjac_3038,
Erinaceus europaeus ENSEEUG000000044221 retrocopy
retro_eeur_681,
Echinops telfairi ENSETEG000000060053 retrocopies
retro_etel_1055, retro_etel_1643, retro_etel_748,
Homo sapiens ENSG000000856627 retrocopies
retro_hsap_1261, retro_hsap_1422, retro_hsap_2049, retro_hsap_2663, retro_hsap_312, retro_hsap_4745, retro_hsap_851,
Homo sapiens ENSG000001227871 retrocopy
retro_hsap_257,
Homo sapiens ENSG00000198074 1 retrocopy
retro_hsap_581 ,
Macaca mulatta ENSMMUG000000130982 retrocopies
retro_mmul_1357, retro_mmul_2455,
Mus musculus ENSMUSG000000297621 retrocopy
retro_mmus_627,
Mus musculus ENSMUSG000000521311 retrocopy
retro_mmus_2860,
Mus musculus ENSMUSG000000617581 retrocopy
retro_mmus_1490,
Nomascus leucogenys ENSNLEG000000130881 retrocopy
retro_nleu_801,
Pongo abelii ENSPPYG000000180181 retrocopy
retro_pabe_606,
Pan troglodytes ENSPTRG000000197181 retrocopy
retro_ptro_428,
Rattus norvegicus ENSRNOG000000097343 retrocopies
retro_rnor_2380, retro_rnor_2588, retro_rnor_657,
Sorex araneus ENSSARG000000013961 retrocopy
retro_sara_608,

Expression level across human populations :
image/svg+xml GBR_HG00142 GBR_HG00099 GBR_HG00114 GBR_HG00143 GBR_HG00131 GBR_HG00137 GBR_HG00133 GBR_HG00119 GBR_HG00111 GBR_HG00134 FIN_HG00378 FIN_HG00338 FIN_HG00349 FIN_HG00375 FIN_HG00315 FIN_HG00277 FIN_HG00328 FIN_HG00321 FIN_HG00377 FIN_HG00183 TSI_NA20756 TSI_NA20538 TSI_NA20798 TSI_NA20532 TSI_NA20765 TSI_NA20518 TSI_NA20513 TSI_NA20512 TSI_NA20771 TSI_NA20786 YRI_NA19114 YRI_NA19099 YRI_NA18870 YRI_NA18907 YRI_NA19223 YRI_NA19214 YRI_NA18916 YRI_NA19093 YRI_NA19118 YRI_NA19213 Toscaniin Italia: Finnish inFinland: British in England and Scotland: Utah Residents (CEPH) with Northernand Western European Ancestry: Yoruba in Ibadan, Nigeria: CEU_NA12760 CEU_NA12827 CEU_NA12872 CEU_NA12751 CEU_NA12873 CEU_NA12400 CEU_NA11930 CEU_NA12004 CEU_NA11831 CEU_NA11843 No expression ( = 0 RPM ) > 0 RPM = 0.03 RPM Legend:


Library Retrogene expression
CEU_NA11831 0 .00 RPM
CEU_NA11843 0 .00 RPM
CEU_NA11930 0 .00 RPM
CEU_NA12004 0 .00 RPM
CEU_NA12400 0 .00 RPM
CEU_NA12751 0 .02 RPM
CEU_NA12760 0 .00 RPM
CEU_NA12827 0 .00 RPM
CEU_NA12872 0 .00 RPM
CEU_NA12873 0 .00 RPM
FIN_HG00183 0 .00 RPM
FIN_HG00277 0 .00 RPM
FIN_HG00315 0 .00 RPM
FIN_HG00321 0 .00 RPM
FIN_HG00328 0 .00 RPM
FIN_HG00338 0 .00 RPM
FIN_HG00349 0 .00 RPM
FIN_HG00375 0 .00 RPM
FIN_HG00377 0 .00 RPM
FIN_HG00378 0 .00 RPM
GBR_HG00099 0 .03 RPM
GBR_HG00111 0 .00 RPM
GBR_HG00114 0 .00 RPM
GBR_HG00119 0 .00 RPM
GBR_HG00131 0 .00 RPM
GBR_HG00133 0 .02 RPM
GBR_HG00134 0 .00 RPM
GBR_HG00137 0 .00 RPM
GBR_HG00142 0 .00 RPM
GBR_HG00143 0 .00 RPM
TSI_NA20512 0 .00 RPM
TSI_NA20513 0 .00 RPM
TSI_NA20518 0 .00 RPM
TSI_NA20532 0 .03 RPM
TSI_NA20538 0 .00 RPM
TSI_NA20756 0 .00 RPM
TSI_NA20765 0 .00 RPM
TSI_NA20771 0 .00 RPM
TSI_NA20786 0 .00 RPM
TSI_NA20798 0 .00 RPM
YRI_NA18870 0 .00 RPM
YRI_NA18907 0 .00 RPM
YRI_NA18916 0 .00 RPM
YRI_NA19093 0 .03 RPM
YRI_NA19099 0 .00 RPM
YRI_NA19114 0 .00 RPM
YRI_NA19118 0 .00 RPM
YRI_NA19213 0 .00 RPM
YRI_NA19214 0 .00 RPM
YRI_NA19223 0 .00 RPM

Indel association:

No indels were associated with its genomic coordinates. Based on Kabza et al. 2015 (PubMed).





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