>retro_hsap_3659
ATGACTCAGCTATACATTTACATCAGATTATTGGGAGCCTATTTGTTCATCATTTCTCGTGTTCAAGGACAGAATCTGGA
TAGTATGCTCCACGGCACTGGGATGAAATCAGACTCCGACCAGAAAAAGTCAGAAAATGGAGTAACCTTAGCACCAGAGG
ATACCTTGCCTTTTTTCAAGTGCTATTGCTGAGGGCACTGCCCAGATGATGCTATTAATAACACATGCATAACTAATGGA
CGTTGCTTTGCCATCATAGAAGAAGATGACCAGGGAGAAACCACATTAGCTTCAGGGTGTATGAAATATGAAGGATCTGA
TTTTCAGTGCAAAGATTCTCCAAAAGCCCAGCTACGCCGGACAATAGAATGTTGTCGGACCAATTTATGTAACCAGTATT
TGCAACCCACATGCCCCCTGTTGTCATAGGTCCGTTTTTTGATGGCAGCATTCGATGGCTGGTTTTGCTCATTTCTATGG
CTGTCTGCATAATTGCTATGATCATCTTCTCCAGCTGCTTTTGTTACAAACATTATTGCAAGAGCATCTCAAGCAGACGT
CGTTACAATCGTGATTTGGAACAGGATGAAGCATTTATTCCAGTTGGAAAATCACTAAAAGACCTTATTGACCAGTCACA
AAGTTCTGGTAGTGGGTCTGGACTACCTTTATTGGTTCAGCGAACTATTGCCAAACAGATTCAGATGGTCCGGCAAGTTG
GTAAAGGCCGATATGGAGAAGTACGGATGGGCAAATGGCATGGCGAAAGAGTGGCGGTGAAAGTATTCTTTACCACTGAA
GAAGCCAGCTGGTTTCGAGAAACAGAAATCTACCAAACTGTGCTAATGCGCCATGAAAACATACTTGGTTTCATAGCGGC
AGATATTAAAGGTACAGGTTCCTGGACTCAGCTCTATTTGATTACTGATTACCATGAAAATGGATCTCTCTATGACTTCC
TGAAATGTGCTACGCTGGACACCAGAGCCCTGCTTAAATTGGCTTATTCAGCTGCCTGTGGTCTGTGCCACCTGCACACA
GAAACGTATGGCACCCAAGGAAAGCCCGCAATTGCTCATCGAGACCTAAAGAGCAAAAACATCCTCATCAAGAAAAATGG
GAGTTGCTGCATTGCTGACCTGGGCCTTGCTGTTAAATTCAACAGTGACACAAATGAAGTTGATGTGCCCTTGAATACCA
GGGTGGGCACCAAACGCTACCTGGCTCCAGAAGTGCTGGACGAAAGCCTGAACAAAAACCACTTCCAGCCCTACATCATG
GCTGATATCTACAGCTTCGGCCTAATCATTTGGGAGATGGCTCGTCGTTGTATCACAGGAGGGATCGTGGAAGACTACCA
ATTGCCATATTATAACATGGTACCGAGTGATCCGTCATACGAAGATATGCGTGAGGTTGTGTGTGTCAAACGTTTGCGGC
CAATTGTGTCTAATCGGTGGAACAGTGATGAATGTCTACGAGCAGTTTTGAAGCTAATGTCAGAATGCTGGGCCCACAAT
CCAGCCCCCAGACTCACAGCGTTGAGAATTAAGAAGACGCTTGCCAAGATGGTTGAATCCCAAGATGTAAAAATC
ORF - retro_hsap_3659 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
97.37 % |
Parental protein coverage: |
100. % |
Number of stop codons detected: |
1 |
Number of frameshifts detected |
1 |
Retrocopy - Parental Gene Alignment:
Parental | MPQLYIYIRLLGAYLFIISRVQGQNLDSMLHGTGMKSDSDQKKSENGVTLAPEDTLPFLKCYCSGHCPDD |
| M.QLYIYIRLLGAYLFIISRVQGQNLDSMLHGTGMKSDSDQKKSENGVTLAPEDTLPF.KCYC.GHCPDD |
Retrocopy | MTQLYIYIRLLGAYLFIISRVQGQNLDSMLHGTGMKSDSDQKKSENGVTLAPEDTLPFFKCYC*GHCPDD |
|
Parental | AINNTCITNGHCFAIIEEDDQGETTLASGCMKYEGSDFQCKDSPKAQLRRTIECCRTNLCNQYLQPT-LP |
| AINNTCITNG.CFAIIEEDDQGETTLASGCMKYEGSDFQCKDSPKAQLRRTIECCRTNLCNQYLQPT..P |
Retrocopy | AINNTCITNGRCFAIIEEDDQGETTLASGCMKYEGSDFQCKDSPKAQLRRTIECCRTNLCNQYLQPT<MP |
|
Parental | PVVIGPFFDGSIRWLVLLISMAVCIIAMIIFSSCFCYKHYCKSISSRRRYNRDLEQDEAFIPVGESLKDL |
| PVVIGPFFDGSIRWLVLLISMAVCIIAMIIFSSCFCYKHYCKSISSRRRYNRDLEQDEAFIPVG.SLKDL |
Retrocopy | PVVIGPFFDGSIRWLVLLISMAVCIIAMIIFSSCFCYKHYCKSISSRRRYNRDLEQDEAFIPVGKSLKDL |
|
Parental | IDQSQSSGSGSGLPLLVQRTIAKQIQMVRQVGKGRYGEVWMGKWRGEKVAVKVFFTTEEASWFRETEIYQ |
| IDQSQSSGSGSGLPLLVQRTIAKQIQMVRQVGKGRYGEV.MGKW.GE.VAVKVFFTTEEASWFRETEIYQ |
Retrocopy | IDQSQSSGSGSGLPLLVQRTIAKQIQMVRQVGKGRYGEVRMGKWHGERVAVKVFFTTEEASWFRETEIYQ |
|
Parental | TVLMRHENILGFIAADIKGTGSWTQLYLITDYHENGSLYDFLKCATLDTRALLKLAYSAACGLCHLHTEI |
| TVLMRHENILGFIAADIKGTGSWTQLYLITDYHENGSLYDFLKCATLDTRALLKLAYSAACGLCHLHTE. |
Retrocopy | TVLMRHENILGFIAADIKGTGSWTQLYLITDYHENGSLYDFLKCATLDTRALLKLAYSAACGLCHLHTET |
|
Parental | YGTQGKPAIAHRDLKSKNILIKKNGSCCIADLGLAVKFNSDTNEVDVPLNTRVGTKRYMAPEVLDESLNK |
| YGTQGKPAIAHRDLKSKNILIKKNGSCCIADLGLAVKFNSDTNEVDVPLNTRVGTKRY.APEVLDESLNK |
Retrocopy | YGTQGKPAIAHRDLKSKNILIKKNGSCCIADLGLAVKFNSDTNEVDVPLNTRVGTKRYLAPEVLDESLNK |
|
Parental | NHFQPYIMADIYSFGLIIWEMARRCITGGIVEEYQLPYYNMVPSDPSYEDMREVVCVKRLRPIVSNRWNS |
| NHFQPYIMADIYSFGLIIWEMARRCITGGIVE.YQLPYYNMVPSDPSYEDMREVVCVKRLRPIVSNRWNS |
Retrocopy | NHFQPYIMADIYSFGLIIWEMARRCITGGIVEDYQLPYYNMVPSDPSYEDMREVVCVKRLRPIVSNRWNS |
|
Parental | DECLRAVLKLMSECWAHNPASRLTALRIKKTLAKMVESQDVKI |
| DECLRAVLKLMSECWAHNPA.RLTALRIKKTLAKMVESQDVKI |
Retrocopy | DECLRAVLKLMSECWAHNPAPRLTALRIKKTLAKMVESQDVKI |
|
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 .24 RPM |
25 .94 RPM |
bodymap2_adrenal |
0 .06 RPM |
23 .19 RPM |
bodymap2_brain |
0 .07 RPM |
23 .25 RPM |
bodymap2_breast |
0 .56 RPM |
38 .81 RPM |
bodymap2_colon |
0 .14 RPM |
48 .53 RPM |
bodymap2_heart |
0 .41 RPM |
21 .06 RPM |
bodymap2_kidney |
0 .00 RPM |
25 .77 RPM |
bodymap2_liver |
0 .00 RPM |
5 .73 RPM |
bodymap2_lung |
0 .30 RPM |
27 .41 RPM |
bodymap2_lymph_node |
0 .05 RPM |
12 .92 RPM |
bodymap2_ovary |
0 .87 RPM |
46 .86 RPM |
bodymap2_prostate |
0 .64 RPM |
54 .02 RPM |
bodymap2_skeletal_muscle |
0 .04 RPM |
18 .24 RPM |
bodymap2_testis |
0 .38 RPM |
38 .54 RPM |
bodymap2_thyroid |
0 .77 RPM |
64 .57 RPM |
bodymap2_white_blood_cells |
0 .18 RPM |
5 .02 RPM |
RNA Polymerase II actvity near the 5' end of retro_hsap_3659 was not detected
No EST(s) were mapped for retro_hsap_3659 retrocopy.
No TSS is located nearby retro_hsap_3659 retrocopy 5' end.
retro_hsap_3659 was not experimentally validated.
Retrocopy orthology:
Retrocopy
retro_hsap_3659 has 2 orthologous retrocopies within
eutheria group
.
Parental genes homology:
Parental genes homology involve
4 parental genes, and
5 retrocopies.
Expression level across human populations :
Library |
Retrogene expression |
CEU_NA11831 |
0 .00 RPM |
CEU_NA11843 |
0 .06 RPM |
CEU_NA11930 |
0 .00 RPM |
CEU_NA12004 |
0 .00 RPM |
CEU_NA12400 |
0 .04 RPM |
CEU_NA12751 |
0 .02 RPM |
CEU_NA12760 |
0 .00 RPM |
CEU_NA12827 |
0 .05 RPM |
CEU_NA12872 |
0 .03 RPM |
CEU_NA12873 |
0 .00 RPM |
FIN_HG00183 |
0 .00 RPM |
FIN_HG00277 |
0 .04 RPM |
FIN_HG00315 |
0 .00 RPM |
FIN_HG00321 |
0 .06 RPM |
FIN_HG00328 |
0 .00 RPM |
FIN_HG00338 |
0 .00 RPM |
FIN_HG00349 |
0 .03 RPM |
FIN_HG00375 |
0 .00 RPM |
FIN_HG00377 |
0 .03 RPM |
FIN_HG00378 |
0 .02 RPM |
GBR_HG00099 |
0 .00 RPM |
GBR_HG00111 |
0 .02 RPM |
GBR_HG00114 |
0 .00 RPM |
GBR_HG00119 |
0 .05 RPM |
GBR_HG00131 |
0 .03 RPM |
GBR_HG00133 |
0 .05 RPM |
GBR_HG00134 |
0 .02 RPM |
GBR_HG00137 |
0 .00 RPM |
GBR_HG00142 |
0 .00 RPM |
GBR_HG00143 |
0 .03 RPM |
TSI_NA20512 |
0 .00 RPM |
TSI_NA20513 |
0 .02 RPM |
TSI_NA20518 |
0 .06 RPM |
TSI_NA20532 |
0 .00 RPM |
TSI_NA20538 |
0 .05 RPM |
TSI_NA20756 |
0 .03 RPM |
TSI_NA20765 |
0 .02 RPM |
TSI_NA20771 |
0 .03 RPM |
TSI_NA20786 |
0 .00 RPM |
TSI_NA20798 |
0 .00 RPM |
YRI_NA18870 |
0 .07 RPM |
YRI_NA18907 |
0 .00 RPM |
YRI_NA18916 |
0 .06 RPM |
YRI_NA19093 |
0 .10 RPM |
YRI_NA19099 |
0 .08 RPM |
YRI_NA19114 |
0 .03 RPM |
YRI_NA19118 |
0 .02 RPM |
YRI_NA19213 |
0 .00 RPM |
YRI_NA19214 |
0 .02 RPM |
YRI_NA19223 |
0 .10 RPM |
Indel association:
No indels were associated with its genomic coordinates. Based on Kabza et al. 2015 (
PubMed).