>retro_hsap_3196
ATGTGGCGCCTGCCTCGCGCACTGTGTGTGCACGCTGCAAAGACCAGCAAGCTCCTTGGACCTTGGAGCAGGCCTGCTGC
CTTCATGTCCACTCTCCTCATCAATCAGCCCCAGTATGCATGGCTGAAAGAGGTGGGGCTCCGAGAGGAAAATGAGGGCG
TGTATAATGGAAGCTGGGGAGGCCGGGGAGAGGTTATTATGACCTGTTGCTCTGCTAACAACTAGCCAATAGCAAGAGTC
CGACAGGCCAGTGTGGCAGACTATGAAGAAACTGTAAAGAAAGCAACAGAAGCATGGAAAATCTGGGCAGATATTCCTGC
TCCAAAACGAGGAGAAATAGTAAGACAGATTGACGATGCCTTGTGGGAGAAGATCCAAGTACTAGGAAGCTTGGTGTCTT
TGGAGATGGGGAAAATCTTAGTGGAAGGTGTGGGTGAAGTTCAGGAGTATGTGGATATCTGTGACTATGCTGTTGGTTTA
TCAAGGATGATTGGAGGACCTATCTTGCCTTCTGAAAGACCTGGCCATGCACTGATTGAGCAGTGGAATCCTGTAGGCCT
GGTTGGAATCATCACGGCATTCAATTTCCCTGTGGCAGTGTATGGTTGGAACAACGCCATTGTCATGATCTGTGGAAATG
TCTGCCTCTGGAAAGGAGCTCCAACCACTTCCCTCATTAGTGTGGCTGTCACAAAGATAATAGCCAAGGTTCTGGAGGAC
AACAAGCTGCTTGGTGCAATTTGTTCCTTGACTTGTGGTGGAGCAGATACCGGCACAGCAATGGCCAAAGATGAACGAGT
GAACCTGCTGTCCTTCACCGGGAGCACTCAGGTGGGAAAACAGATGGCCCTGATGGTGCAGGAGAGGTTTGGGAGAAGTT
TGTTGGAACTTGGAGGAAACAGTACCATTATTGCCTTTGAAGATGCAGACCTCAGCTTAGTTGTTCCATCAGCTCTCTTC
ACTGCTGTGGGAATAGCTGGCCAGAGGTGTACCACTGCGAGGCGACTGTTTGTACATGAAAGCATCCATCATGAGGTTGT
AAACAGACTTAAAAAGGCCTACGCACAGATCCGAGTTGGGAACCCATGGGACCCTAATGTTCTCTATGGGCCACTCCACA
CCAAGCAGGCAGTGAGCATGTTTCTTGGAGCAGCGGAAGAAGCAAAGAAAGAAGGTAGCACAGTGGTCTATGGGGGCAAG
GTTATGGATCGCCCTGGAAATTATGTAGAACCGACAATTGTGACAGGTCTTGCCCACGATGCATCCATTGCACACACAGA
GACTTTTGCTCCGATTCTGTATGTCTTTAAATTCAAGAATGAAGAAGAGGTCTTTGCATGGAATACTGAAGTAAAACAGA
GACTTTCAAGTAGCAACTTTACCAAAGATCTGGGCAGAATCTTTCGCTGGCTTGGACCTAAAGGATCAGACTGTGGCACT
GTAAATGTCAACATTCCAACAAGTGGGGCTGAGATTGGAGGTGCCTTTGGAGGAGAAAAGCACACTGGTGGTGGCAGGGA
ATCTGGCAGTGATGCCTGGAAACAGTACATGAGAAGGTCTACTTGTACTATCAACTACAGTAAAGACTTTCCTCTGGCCC
AAGGAATCAAGTTTCAG
ORF - retro_hsap_3196 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
94.62 % |
Parental protein coverage: |
100. % |
Number of stop codons detected: |
1 |
Number of frameshifts detected |
0 |
Retrocopy - Parental Gene Alignment:
Parental | MWRLPRALCVHAAKTSKLSGPWSRPAAFMSTLLINQPQYAWLKELGLREENEGVYNGSWGGRGEVITTYC |
| MWRLPRALCVHAAKTSKL.GPWSRPAAFMSTLLINQPQYAWLKE.GLREENEGVYNGSWGGRGEVI.T.C |
Retrocopy | MWRLPRALCVHAAKTSKLLGPWSRPAAFMSTLLINQPQYAWLKEVGLREENEGVYNGSWGGRGEVIMTCC |
|
Parental | PANNEPIARVRQASVADYEETVKKAREAWKIWADIPAPKRGEIVRQIGDALREKIQVLGSLVSLEMGKIL |
| .ANN.PIARVRQASVADYEETVKKA.EAWKIWADIPAPKRGEIVRQI.DAL.EKIQVLGSLVSLEMGKIL |
Retrocopy | SANN*PIARVRQASVADYEETVKKATEAWKIWADIPAPKRGEIVRQIDDALWEKIQVLGSLVSLEMGKIL |
|
Parental | VEGVGEVQEYVDICDYAVGLSRMIGGPILPSERSGHALIEQWNPVGLVGIITAFNFPVAVYGWNNAIAMI |
| VEGVGEVQEYVDICDYAVGLSRMIGGPILPSER.GHALIEQWNPVGLVGIITAFNFPVAVYGWNNAI.MI |
Retrocopy | VEGVGEVQEYVDICDYAVGLSRMIGGPILPSERPGHALIEQWNPVGLVGIITAFNFPVAVYGWNNAIVMI |
|
Parental | CGNVCLWKGAPTTSLISVAVTKIIAKVLEDNKLPGAICSLTCGGADIGTAMAKDERVNLLSFTGSTQVGK |
| CGNVCLWKGAPTTSLISVAVTKIIAKVLEDNKL.GAICSLTCGGAD.GTAMAKDERVNLLSFTGSTQVGK |
Retrocopy | CGNVCLWKGAPTTSLISVAVTKIIAKVLEDNKLLGAICSLTCGGADTGTAMAKDERVNLLSFTGSTQVGK |
|
Parental | QVGLMVQERFGRSLLELGGNNAIIAFEDADLSLVVPSALFAAVGTAGQRCTTARRLFIHESIHDEVVNRL |
| Q..LMVQERFGRSLLELGGN..IIAFEDADLSLVVPSALF.AVG.AGQRCTTARRLF.HESIH.EVVNRL |
Retrocopy | QMALMVQERFGRSLLELGGNSTIIAFEDADLSLVVPSALFTAVGIAGQRCTTARRLFVHESIHHEVVNRL |
|
Parental | KKAYAQIRVGNPWDPNVLYGPLHTKQAVSMFLGAVEEAKKEGGTVVYGGKVMDRPGNYVEPTIVTGLGHD |
| KKAYAQIRVGNPWDPNVLYGPLHTKQAVSMFLGA.EEAKKEG.TVVYGGKVMDRPGNYVEPTIVTGL.HD |
Retrocopy | KKAYAQIRVGNPWDPNVLYGPLHTKQAVSMFLGAAEEAKKEGSTVVYGGKVMDRPGNYVEPTIVTGLAHD |
|
Parental | ASIAHTETFAPILYVFKFKNEEEVFAWNNEVKQGLSSSIFTKDLGRIFRWLGPKGSDCGIVNVNIPTSGA |
| ASIAHTETFAPILYVFKFKNEEEVFAWN.EVKQ.LSSS.FTKDLGRIFRWLGPKGSDCG.VNVNIPTSGA |
Retrocopy | ASIAHTETFAPILYVFKFKNEEEVFAWNTEVKQRLSSSNFTKDLGRIFRWLGPKGSDCGTVNVNIPTSGA |
|
Parental | EIGGAFGGEKHTGGGRESGSDAWKQYMRRSTCTINYSKDLPLAQGIKFQ |
| EIGGAFGGEKHTGGGRESGSDAWKQYMRRSTCTINYSKD.PLAQGIKFQ |
Retrocopy | EIGGAFGGEKHTGGGRESGSDAWKQYMRRSTCTINYSKDFPLAQGIKFQ |
|
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 |
31 .84 RPM |
bodymap2_adrenal |
0 .02 RPM |
25 .16 RPM |
bodymap2_brain |
0 .19 RPM |
152 .55 RPM |
bodymap2_breast |
0 .02 RPM |
57 .69 RPM |
bodymap2_colon |
0 .02 RPM |
24 .61 RPM |
bodymap2_heart |
0 .04 RPM |
27 .41 RPM |
bodymap2_kidney |
0 .10 RPM |
79 .31 RPM |
bodymap2_liver |
0 .02 RPM |
36 .04 RPM |
bodymap2_lung |
0 .00 RPM |
20 .09 RPM |
bodymap2_lymph_node |
0 .00 RPM |
15 .11 RPM |
bodymap2_ovary |
0 .06 RPM |
108 .88 RPM |
bodymap2_prostate |
0 .02 RPM |
55 .74 RPM |
bodymap2_skeletal_muscle |
0 .00 RPM |
8 .98 RPM |
bodymap2_testis |
0 .77 RPM |
40 .53 RPM |
bodymap2_thyroid |
0 .28 RPM |
65 .06 RPM |
bodymap2_white_blood_cells |
0 .00 RPM |
1 .14 RPM |
RNA Polymerase II actvity near the 5' end of retro_hsap_3196 was not detected
No EST(s) were mapped for retro_hsap_3196 retrocopy.
No TSS is located nearby retro_hsap_3196 retrocopy 5' end.
retro_hsap_3196 was not experimentally validated.
Retrocopy orthology:
Retrocopy
retro_hsap_3196 has 1 orthologous retrocopies within
eutheria group
.
Parental genes homology:
Parental genes homology involve
5 parental genes, and
5 retrocopies.
Expression level across human populations :
Library |
Retrogene expression |
CEU_NA11831 |
0 .00 RPM |
CEU_NA11843 |
0 .00 RPM |
CEU_NA11930 |
0 .03 RPM |
CEU_NA12004 |
0 .00 RPM |
CEU_NA12400 |
0 .00 RPM |
CEU_NA12751 |
0 .00 RPM |
CEU_NA12760 |
0 .00 RPM |
CEU_NA12827 |
0 .00 RPM |
CEU_NA12872 |
0 .05 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 .02 RPM |
FIN_HG00338 |
0 .02 RPM |
FIN_HG00349 |
0 .00 RPM |
FIN_HG00375 |
0 .00 RPM |
FIN_HG00377 |
0 .03 RPM |
FIN_HG00378 |
0 .00 RPM |
GBR_HG00099 |
0 .00 RPM |
GBR_HG00111 |
0 .02 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 .19 RPM |
TSI_NA20532 |
0 .00 RPM |
TSI_NA20538 |
0 .00 RPM |
TSI_NA20756 |
0 .00 RPM |
TSI_NA20765 |
0 .00 RPM |
TSI_NA20771 |
0 .03 RPM |
TSI_NA20786 |
0 .03 RPM |
TSI_NA20798 |
0 .03 RPM |
YRI_NA18870 |
0 .03 RPM |
YRI_NA18907 |
0 .00 RPM |
YRI_NA18916 |
0 .00 RPM |
YRI_NA19093 |
0 .05 RPM |
YRI_NA19099 |
0 .03 RPM |
YRI_NA19114 |
0 .00 RPM |
YRI_NA19118 |
0 .00 RPM |
YRI_NA19213 |
0 .02 RPM |
YRI_NA19214 |
0 .00 RPM |
YRI_NA19223 |
0 .02 RPM |
Indel association:
No indels were associated with its genomic coordinates. Based on Kabza et al. 2015 (
PubMed).