>retro_hsap_4165
ATGACAGCCAAGGAGATGAAGGCGACCGAGAGTGCGGCGCAGCCGGCGCCGCTGCCCAAGAAGGAAGTGGACGTCAGCCC
CAAACAGGATGAAGGAGTGCTGAAGGTCATCAAGAGAGAGGGCACAGGTACAGAGATGCCCATGACTGGGGACCTAGTCT
TTGTCCACTACACTGGCTGGCTGTTAGAGGGCACAAAGTTTGACTCCAGCGTGGATCGCAAGGACAAATTCTCCTTTGAC
CTGGGAAAAGGGGAGGTCATCAAGGCTTGGAACATTGCCGTAGCAACCATGAAGGTGGGGGAGGTGGGCCACATCACCTG
CAAACCAGGATATGCCTAGAGTTCAGCAGACAGTCCTCCAACGATCCCCCCATAACGCCACGCTTGTGTTTGAGGTGGAA
TTGTTTAAGGAAGAAGATCTGACGGAAGAGGAAGATGGGGGAATCATCCGCAGAATAGGGACTCGCGGTGAAGGCTATGT
CAAGCCCGATGAGGGCGCTATGGTGGAGGTTGCGCTGGAAGGGTGCTGCAAGGACCAGCCCTTTGACCAACGGGCGCTCC
GCTTTGAGGTTAGCGAGGGGGAGAACCTGGATCTGCCTTATGATCTGGAGAGGGCCATTCAGCACTTGGAGAAAGGAGAA
CATTCCACTGTGTACCTCAAGCCCAGCTATGCTTTTGGCAGTGTTGGGAAGGAAAAGTTCCAAATCCCACCAAATGCCGA
GCTGAAATATGAATTACATCTCAAGAGTTTTGAAAAGGCCAAGGAATCTTGGGAGATGATTTCAGAAGAGAAGCTGGAAC
AGAACACCATAGTGAAAGAGCAGGGCAGTGTGTACTTCAAGGAAGGCAAATACAAGCAAGCTTTACTACAGTGTAAGAAG
ATTGTGTCCTGGCTGGAATATGAGTCTAGTTTTTCCAATGAGGAAGCACAGAAGGCACAGGCCCTTCGACTGGCCTCTCA
CCTCGACCTGGCCATGTGTCAGCTGAAACTACAGGCCTTCTCTGCTGCCATTGAAAGTTGTAACAATGCCCTAGAACTGG
GCAGCAACAACGAGAAGGGCCCCTTCCGCCGGGGAGAGGCCCACCTGGCGGTGAATGACTTTGAACTGGCATGGGCTGAC
TTCCAGAAGGTCCTGCAGCTCTACCCCAACGACAAAGCCGCCAGGGCCCAGCTGGCTGTGGGTCAGCAGCGGATCCACAG
GCAGCTTGCCCGGGAGAAGTTCTATGCCAAAATGTTTGAGAGGCTGGCTGAGGAGGAGAACAAGGCCAAGGCAGAGGCTT
GCTCAGGAGACCATCCCACTGACACAGAGATGAAGGCGGAGTGCAAGAGCAACACGGCGGGAGCCAGTCTCAGGTGGAGA
CAGAAGCA
ORF - retro_hsap_4165 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
86.77 % |
Parental protein coverage: |
100. % |
Number of stop codons detected: |
1 |
Number of frameshifts detected |
2 |
Retrocopy - Parental Gene Alignment:
Parental | MTAEEMKATESGAQSAPLPMEGVDISPKQDEGVLKVIKREGTGTEMPMIGDRVFVHYTGWLLDGTKFDSS |
| MTA.EMKATES.AQ.APLP...VD.SPKQDEGVLKVIKREGTGTEMPM.GD.VFVHYTGWLL.GTKFDSS |
Retrocopy | MTAKEMKATESAAQPAPLPKKEVDVSPKQDEGVLKVIKREGTGTEMPMTGDLVFVHYTGWLLEGTKFDSS |
|
Parental | LDRKDKFSFDLGKGEVIKAWDIAIATMKVGEVCHITCKPEYAYGSAGSPPKIPP-NATLVFEVELFEFKG |
| .DRKDKFSFDLGKGEVIKAW.IA.ATMKVGEV.HITCKP.YA..SA.SPP.IPP.NATLVFEVELF..K. |
Retrocopy | VDRKDKFSFDLGKGEVIKAWNIAVATMKVGEVGHITCKPGYA*SSADSPPTIPP>NATLVFEVELF--KE |
|
Parental | EDLTEEEDGGIIRRIQTRGEGYAKPNEGAIVEVALEGYYKDKLFDQRELRFEIGEGENLDLPYGLERAIQ |
| EDLTEEEDGGIIRRI.TRGEGY.KP.EGA.VEVALEG..KD..FDQR.LRFE..EGENLDLPY.LERAIQ |
Retrocopy | EDLTEEEDGGIIRRIGTRGEGYVKPDEGAMVEVALEGCCKDQPFDQRALRFEVSEGENLDLPYDLERAIQ |
|
Parental | RMEKGEHSIVYLKPSYAFGSVGKEKFQIPPNAELKYELHLKSFEKAKESWEMNSEEKLEQSTIVKERGTV |
| ..EKGEHS.VYLKPSYAFGSVGKEKFQIPPNAELKYELHLKSFEKAKESWEM.SEEKLEQ.TIVKE.G.V |
Retrocopy | HLEKGEHSTVYLKPSYAFGSVGKEKFQIPPNAELKYELHLKSFEKAKESWEMISEEKLEQNTIVKEQGSV |
|
Parental | YFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD |
| YFKEGKYKQALLQ.KKIVSWLEYESSFSNEEAQKAQALRLASHL.LAMC.LKLQAFSAAIESCN.ALEL. |
Retrocopy | YFKEGKYKQALLQCKKIVSWLEYESSFSNEEAQKAQALRLASHLDLAMCQLKLQAFSAAIESCNNALELG |
|
Parental | SNNEKGLFRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAREKKLYANMFERLA |
| SNNEKG.FRRGEAHLAVNDFELA.ADFQKVLQLYPN.KAA..QLAV.QQRI.RQLARE.K.YA.MFERLA |
Retrocopy | SNNEKGPFRRGEAHLAVNDFELAWADFQKVLQLYPNDKAARAQLAVGQQRIHRQLARE-KFYAKMFERLA |
|
Parental | EEENKAKAEASSGDHPTDTEMKEEQKSNTA-GSQSQVETEA |
| EEENKAKAEA.SGDHPTDTEMK.E.KSNTA.GSQSQVETEA |
Retrocopy | EEENKAKAEACSGDHPTDTEMKAECKSNTA<GSQSQVETEA |
|
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 |
bodymap2_adipose |
0 .00 RPM |
71 .84 RPM |
bodymap2_adrenal |
0 .00 RPM |
38 .75 RPM |
bodymap2_brain |
0 .00 RPM |
89 .26 RPM |
bodymap2_breast |
0 .00 RPM |
49 .36 RPM |
bodymap2_colon |
0 .00 RPM |
286 .02 RPM |
bodymap2_heart |
0 .00 RPM |
43 .48 RPM |
bodymap2_kidney |
0 .12 RPM |
223 .20 RPM |
bodymap2_liver |
0 .00 RPM |
75 .69 RPM |
bodymap2_lung |
0 .00 RPM |
106 .05 RPM |
bodymap2_lymph_node |
0 .00 RPM |
227 .74 RPM |
bodymap2_ovary |
0 .00 RPM |
160 .08 RPM |
bodymap2_prostate |
0 .00 RPM |
152 .17 RPM |
bodymap2_skeletal_muscle |
0 .00 RPM |
199 .27 RPM |
bodymap2_testis |
0 .00 RPM |
224 .41 RPM |
bodymap2_thyroid |
0 .00 RPM |
287 .93 RPM |
bodymap2_white_blood_cells |
0 .02 RPM |
57 .86 RPM |
RNA Polymerase II actvity near the 5' end of retro_hsap_4165 was not detected
No EST(s) were mapped for retro_hsap_4165 retrocopy.
No TSS is located nearby retro_hsap_4165 retrocopy 5' end.
retro_hsap_4165 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_hsap_4165 has 0 orthologous retrocopies within eutheria group .
Parental genes homology:
Parental genes homology involve
12 parental genes, and
27 retrocopies.
Expression level across human populations :
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 .05 RPM |
CEU_NA12760 |
0 .04 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 .00 RPM |
GBR_HG00111 |
0 .06 RPM |
GBR_HG00114 |
0 .05 RPM |
GBR_HG00119 |
0 .00 RPM |
GBR_HG00131 |
0 .00 RPM |
GBR_HG00133 |
0 .00 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 .02 RPM |
TSI_NA20518 |
0 .00 RPM |
TSI_NA20532 |
0 .00 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 .00 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).