>retro_hsap_2045
AATGTAGATCTTCAAAGTGATCCTGCTCTGCTGGTGGACATTTCTGATGCTCTTAGTGAGCGGAATAAAGTAAAATTCAC
CATTCACACAAAGAGTTTATTGCCAAATTTTAAACAAAATGAGTTTTCTGTTGTTCAGCAACATGAGCAATTTATCTGGC
TTCATGATTCCTTTGTTAAAAATGAAGACTATGCAGGTTACATCATTCCACCAGCACCACCAAGAGCTGATTTTGATGCT
TCAAGGGAAAAAGTACAGAAGCTTGGAGAAGGAGAAGGGTCAATGACAAAGGAAGAATTCACAAAGATGAAACAGGAACT
GGAAGCTGAATATTTGGGAATATCCAAGAACACAGTTGTGATGCATGAAGTGTTCCTATGTCATGTGACAGCACATCCTA
TTTTGAGAAAATATTTAAATTTCCATGTCTTCTTGGAATATAATCAAGATTTGAGTGTGCAAGGAAAAATAAAAAGAGAA
ACTTGAAGATTTCTTTAAAAACATGGTTAAATCAGCAGATGGAGTAATTATTTCCGGAGTAAAGGATGTAGATAATTTCT
TTGAGCATGAACAAACATTTCTTTTAGAATATCATAACCGAGATAAGGATGCATCTGCTAACTCATAGAAGGACAAGATC
CCACAAAAGTGCTGCAGATTATTACAATAGAATTGGTTCTTCATTATATGCTTTAGGAACTCGGGATTCTACAGATATAC
GCAAGTTTTTTCTCAAAGTTTCAGAAATGTTTGATAAAACAAGAAAAATAGAAGCATGAGTGTCTGCTGATGAGGACCTC
AAACTTTCTGACCCTTAAAAATATTACTTAAGAGAAACTCAAGCTGCTAAGGATCTCCTGTATTGAAGGTCTAGGTCACT
ACTGGATTATGAAAATGCTAATATAGCACTGGATAAAGCAAGAGCAAAAAATAAAGATGTTCTGCTGGCTAAAACTTCCC
AACAATTATGTAGTCAGAAATTTGAAAAAAAAAAATCTCAGTCTGCAAAACAAGAACTTATAGATTTTAAGACAAGAAGC
ATTGCTGCATTCAGAAAAAAAAAAAAACTAGTGGAACTGGCAGAGTTAGAACTGAAGCATGCAAAGGGTAACCTACAGTT
GCTGCCAAACTGCCTGGCAGTGCTAAACGGAGAC
ORF - retro_hsap_2045 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
60.97 % |
Parental protein coverage: |
95.78 % |
Number of stop codons detected: |
3 |
Number of frameshifts detected |
3 |
Retrocopy - Parental Gene Alignment:
Parental | SVDLQGDSSLQVEISDAVSERDKVKFTVQTKSCLPHFAQTEFSVVRQHEEFIWLHDAYVENEEYAGLIIP |
| .VDLQ.D..L.V.ISDA.SER.KVKFT..TKS.LP.F.Q.EFSVV.QHE.FIWLHD..V.NE.YAG.IIP |
Retrocopy | NVDLQSDPALLVDISDALSERNKVKFTIHTKSLLPNFKQNEFSVVQQHEQFIWLHDSFVKNEDYAGYIIP |
|
Parental | PAPPRPDFEASREKLQKLGEGDSSVTREEFAKMKQELEAEYLAIFKKTVAMHEVFLQRLAAHPTLRRDHN |
| PAPPR.DF.ASREK.QKLGEG..S.T.EEF.KMKQELEAEYL.I.K.TV.MHEVFL....AHP.LR...N |
Retrocopy | PAPPRADFDASREKVQKLGEGEGSMTKEEFTKMKQELEAEYLGISKNTVVMHEVFLCHVTAHPILRKYLN |
|
Parental | FFVFLEYGQDLSVRG-KNRK-ELLGGFLRNIVKSADEALITGMSGLKEVDDFFEHERTFLLEYH-TRIRD |
| F.VFLEY.QDLSV.G.KN.K.E.L..F..N.VKSAD...I...SG.K.VD.FFEHE.TFLLEYH.T.IR. |
Retrocopy | FHVFLEYNQDLSVQG<KNKK<EKLEDFFKNMVKSADGVII---SGVKDVDNFFEHEQTFLLEYH>TEIRM |
|
Parental | ACLRADRVMRAHKCLADDYIPISAALSSLGTQEVNQLRTSFLKLAELFERLRKLEGRVASDEDLKLSDML |
| ..L...R..R.HK..AD.Y..I...L..LGT......R..FLK..E.F...RK.E..V..DEDLKLSD.. |
Retrocopy | HLLTHRRT-RSHKSAADYYNRIGSSLYALGTRDSTDIRKFFLKVSEMFDKTRKIEA*VSADEDLKLSDP* |
|
Parental | RYYMRDSQAAKDLLYRRLRALADYENANKALDKARTRNREVRPAESHQQLCCQRF-ERLSDSAKQELMDF |
| .YY.R..QAAKDLLY.R.R.L.DYENAN.ALDKAR..N..V..A...QQLC.Q.F....S.SAKQEL.DF |
Retrocopy | KYYLRETQAAKDLLY*RSRSLLDYENANIALDKARAKNKDVLLAKTSQQLCSQKFXXXXSQSAKQELIDF |
|
Parental | KSRRVSSF--RKNLIELAELELKHAKASTLILRNTLVALKGE |
| K.R....F.....L.ELAELELKHAK.....L.N.L..L.G. |
Retrocopy | KTRSIAAFXXXXXLVELAELELKHAKGNLQLLPNCLAVLNGD |
|
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 |
0 .56 RPM |
bodymap2_adrenal |
0 .00 RPM |
4 .79 RPM |
bodymap2_brain |
0 .00 RPM |
9 .63 RPM |
bodymap2_breast |
0 .12 RPM |
1 .50 RPM |
bodymap2_colon |
0 .00 RPM |
1 .55 RPM |
bodymap2_heart |
0 .00 RPM |
0 .11 RPM |
bodymap2_kidney |
0 .00 RPM |
0 .74 RPM |
bodymap2_liver |
0 .00 RPM |
0 .23 RPM |
bodymap2_lung |
0 .00 RPM |
0 .42 RPM |
bodymap2_lymph_node |
0 .00 RPM |
1 .96 RPM |
bodymap2_ovary |
0 .08 RPM |
1 .23 RPM |
bodymap2_prostate |
0 .00 RPM |
0 .52 RPM |
bodymap2_skeletal_muscle |
0 .00 RPM |
0 .18 RPM |
bodymap2_testis |
0 .04 RPM |
2 .88 RPM |
bodymap2_thyroid |
0 .04 RPM |
1 .00 RPM |
bodymap2_white_blood_cells |
0 .00 RPM |
0 .79 RPM |
RNA Polymerase II actvity near the 5' end of retro_hsap_2045 was not detected
No EST(s) were mapped for retro_hsap_2045 retrocopy.
No TSS is located nearby retro_hsap_2045 retrocopy 5' end.
retro_hsap_2045 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_hsap_2045 has 0 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 .00 RPM |
CEU_NA11930 |
0 .10 RPM |
CEU_NA12004 |
0 .00 RPM |
CEU_NA12400 |
0 .04 RPM |
CEU_NA12751 |
0 .02 RPM |
CEU_NA12760 |
0 .04 RPM |
CEU_NA12827 |
0 .00 RPM |
CEU_NA12872 |
0 .00 RPM |
CEU_NA12873 |
0 .03 RPM |
FIN_HG00183 |
0 .00 RPM |
FIN_HG00277 |
0 .07 RPM |
FIN_HG00315 |
0 .06 RPM |
FIN_HG00321 |
0 .03 RPM |
FIN_HG00328 |
0 .07 RPM |
FIN_HG00338 |
0 .00 RPM |
FIN_HG00349 |
0 .09 RPM |
FIN_HG00375 |
0 .05 RPM |
FIN_HG00377 |
0 .08 RPM |
FIN_HG00378 |
0 .00 RPM |
GBR_HG00099 |
0 .09 RPM |
GBR_HG00111 |
0 .06 RPM |
GBR_HG00114 |
0 .16 RPM |
GBR_HG00119 |
0 .10 RPM |
GBR_HG00131 |
0 .03 RPM |
GBR_HG00133 |
0 .05 RPM |
GBR_HG00134 |
0 .02 RPM |
GBR_HG00137 |
0 .00 RPM |
GBR_HG00142 |
0 .03 RPM |
GBR_HG00143 |
0 .03 RPM |
TSI_NA20512 |
0 .00 RPM |
TSI_NA20513 |
0 .17 RPM |
TSI_NA20518 |
0 .03 RPM |
TSI_NA20532 |
0 .10 RPM |
TSI_NA20538 |
0 .00 RPM |
TSI_NA20756 |
0 .06 RPM |
TSI_NA20765 |
0 .19 RPM |
TSI_NA20771 |
0 .09 RPM |
TSI_NA20786 |
0 .00 RPM |
TSI_NA20798 |
0 .00 RPM |
YRI_NA18870 |
0 .03 RPM |
YRI_NA18907 |
0 .00 RPM |
YRI_NA18916 |
0 .02 RPM |
YRI_NA19093 |
0 .03 RPM |
YRI_NA19099 |
0 .03 RPM |
YRI_NA19114 |
0 .03 RPM |
YRI_NA19118 |
0 .10 RPM |
YRI_NA19213 |
0 .00 RPM |
YRI_NA19214 |
0 .00 RPM |
YRI_NA19223 |
0 .16 RPM |
Indel association:
No indels were associated with its genomic coordinates. Based on Kabza et al. 2015 (
PubMed).