>retro_hsap_2317
ATGCCGTCCCGGGCTGAGAACTATGAAGTGTTGTACACCATTGGCACAGGCTCCTGTGGCCGCTGCCAGAAGATCCAGAG
GAAGAGTGACGGCAAGATACTAGTTTGGAAAGAACTTCATTATGGCTCCATGACAGAAGCTGAGAAACAGATGCTTGTTT
CTGAAGTGAATTTGCTTTGTGAACTGAAAAATCCAAACATCGTTCATTACTATGATCGTATTATTGACCGGACCAACACA
ACACTGTACATTGTAATGGAATATTGTGAAGAAGGAGACCTGGCTAGTGTAATTACAAAGGGAACCAAGGAAAGGCAATA
CTTAGATGAAGAGTTTGTTCTTCGAGTGACGACTCAGTTGACTCTGGCCCTGAAGTAATGCCACAGACGAAGTGATGGTG
ATCATACTGTAGTGCGTCGGGATCTGAAACCAGCCAGTGTTTTCCTGGATGGCAAGCAAAACGTCAAGCTTGGAGATTTG
GGGCTAGCCAGAATATTAAACCACGACACGAGTTTTGCAAAAACATTTGTTGGCACACCTTATTACATGTCTCCTGAACA
AACGAATCACATGTCCTACAATGAGAAACCAGATATCTGGTCATTGGGCCGTTTGCTGTATGAGTTAGGTGCATTAATGC
CTCCATTTACAGCTTTTAGCCAGAAAGAACTTGCTGGGAAAATCAGAGAAGGCAAATTCAGGCAAATTCTATACCGTGAC
TCTGACGAATTGAATGAAATTATTATGAGGATGTTAAAGGATTACCATCGACCTTCTGTTGAAGAAATTCTCGAGAACCC
TTTAATAGCAGATTTGGTTGCAGAAGAACGAAGAAGAAATCTTGAGAGAAGAGGGCGACAATTAGGAGAGCCAGAAAAAT
TGCAGGATTCCAGCCCTGTATTGAGTGAGCTGAAACTAAAGGAAATTCAGTTAGAGGAGCGAGAGCGAGCTCTCAAAGCA
AGAGAAGAAAGATTGGAGCAGAAAGAACAGGAGTTTTGTGTCCGTGAGAGACTAGCAGAGGACAGACTGGCTAGAGCAGA
AAATCTGTTGAAGAATTACAGCTTGCTAAAGAAGTTCCTGTCTCTGGCAAGTAGTCCAGAACTTCTTAGTCTTCCATCCT
CAGTAATTAAGAAGAAAGGTCATTTCAGTGGGGAAAGTAAAGAGAATGTCATGAGGAGTGAGAATTCTGAGAGTCAGCTC
ACATCTAAGTCCAAGTGCAAGGACCTGAAGGTCCTTGCTTCATGCTTCATGCTGCCCAGCTGCGGGCTCAAGCCCTGTCA
GATATTGAGAAAAATTATCAACTAAAAAG
ORF - retro_hsap_2317 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
86.62 % |
Parental protein coverage: |
98.88 % |
Number of stop codons detected: |
2 |
Number of frameshifts detected |
1 |
Retrocopy - Parental Gene Alignment:
Parental | MPSRAEDYEVLYTIGTGSYGRCQKIRRKSDGKILVWKELDYGSMTEAEKQMLVSEVNLLRELKHPNIVRY |
| MPSRAE.YEVLYTIGTGS.GRCQKI.RKSDGKILVWKEL.YGSMTEAEKQMLVSEVNLL.ELK.PNIV.Y |
Retrocopy | MPSRAENYEVLYTIGTGSCGRCQKIQRKSDGKILVWKELHYGSMTEAEKQMLVSEVNLLCELKNPNIVHY |
|
Parental | YDRIIDRTNTTLYIVMEYCEGGDLASVITKGTKERQYLDEEFVLRVMTQLTLALKECHRRSDGGHTVLHR |
| YDRIIDRTNTTLYIVMEYCE.GDLASVITKGTKERQYLDEEFVLRV.TQLTLALK.CHRRSDG.HTV..R |
Retrocopy | YDRIIDRTNTTLYIVMEYCEEGDLASVITKGTKERQYLDEEFVLRVTTQLTLALK*CHRRSDGDHTVVRR |
|
Parental | DLKPANVFLDGKQNVKLGDFGLARILNHDTSFAKTFVGTPYYMSPEQMNRMSYNEKSDIWSLGCLLYELC |
| DLKPA.VFLDGKQNVKLGD.GLARILNHDTSFAKTFVGTPYYMSPEQ.N.MSYNEK.DIWSLG.LLYEL. |
Retrocopy | DLKPASVFLDGKQNVKLGDLGLARILNHDTSFAKTFVGTPYYMSPEQTNHMSYNEKPDIWSLGRLLYELG |
|
Parental | ALMPPFTAFSQKELAGKIREGKFRRIPYRYSDELNEIITRMLNLKDYHRPSVEEILENPLIADLVADEQR |
| ALMPPFTAFSQKELAGKIREGKFR.I.YR.SDELNEII.RM..LKDYHRPSVEEILENPLIADLVA.E.R |
Retrocopy | ALMPPFTAFSQKELAGKIREGKFRQILYRDSDELNEIIMRM--LKDYHRPSVEEILENPLIADLVAEERR |
|
Parental | RNLERRGRQLGEPEKSQDSSPVLSELKLKEIQLQERERALKAREERLEQKEQELCVRERLAEDKLARAEN |
| RNLERRGRQLGEPEK.QDSSPVLSELKLKEIQL.ERERALKAREERLEQKEQE.CVRERLAED.LARAEN |
Retrocopy | RNLERRGRQLGEPEKLQDSSPVLSELKLKEIQLEERERALKAREERLEQKEQEFCVRERLAEDRLARAEN |
|
Parental | LLKNYSLLKERKFLSLASNPELLNLPSSVIKKKVHFSGESKENIMRSENSESQLTSKSKCKDLK-KRLHA |
| LLKNYSLLK..KFLSLAS.PELL.LPSSVIKKK.HFSGESKEN.MRSENSESQLTSKSKCKDLK...LHA |
Retrocopy | LLKNYSLLK--KFLSLASSPELLSLPSSVIKKKGHFSGESKENVMRSENSESQLTSKSKCKDLK>SLLHA |
|
Parental | AQLRAQALSDIEKNYQLKSRQ |
| ....A...S.......L.... |
Retrocopy | SCCPAAGSSPVRY*EKLSTKK |
|
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 .62 RPM |
bodymap2_adrenal |
0 .00 RPM |
0 .59 RPM |
bodymap2_brain |
0 .00 RPM |
0 .49 RPM |
bodymap2_breast |
0 .00 RPM |
0 .70 RPM |
bodymap2_colon |
0 .00 RPM |
1 .74 RPM |
bodymap2_heart |
0 .00 RPM |
0 .04 RPM |
bodymap2_kidney |
0 .00 RPM |
0 .29 RPM |
bodymap2_liver |
0 .00 RPM |
0 .11 RPM |
bodymap2_lung |
0 .00 RPM |
2 .04 RPM |
bodymap2_lymph_node |
0 .00 RPM |
1 .55 RPM |
bodymap2_ovary |
0 .00 RPM |
0 .79 RPM |
bodymap2_prostate |
0 .00 RPM |
0 .16 RPM |
bodymap2_skeletal_muscle |
0 .00 RPM |
0 .00 RPM |
bodymap2_testis |
1 .43 RPM |
116 .15 RPM |
bodymap2_thyroid |
0 .00 RPM |
0 .75 RPM |
bodymap2_white_blood_cells |
0 .00 RPM |
0 .49 RPM |
RNA Polymerase II actvity near the 5' end of retro_hsap_2317 was not detected
1 EST(s) were mapped to retro_hsap_2317 retrocopy
EST ID |
Start |
End |
Identity |
Match |
Mis-match |
Score |
BF174235 |
131936096 |
131936318 |
97.8 |
220 |
2 |
217 |
No TSS is located nearby retro_hsap_2317 retrocopy 5' end.
retro_hsap_2317 was not experimentally validated.
Retrocopy orthology:
Retrocopy
retro_hsap_2317 has 1 orthologous retrocopies within
eutheria group
.
Parental genes homology:
Parental genes homology involve
5 parental genes, and
9 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 .00 RPM |
CEU_NA12760 |
0 .00 RPM |
CEU_NA12827 |
0 .00 RPM |
CEU_NA12872 |
0 .03 RPM |
CEU_NA12873 |
0 .03 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 .06 RPM |
FIN_HG00375 |
0 .00 RPM |
FIN_HG00377 |
0 .00 RPM |
FIN_HG00378 |
0 .00 RPM |
GBR_HG00099 |
0 .00 RPM |
GBR_HG00111 |
0 .00 RPM |
GBR_HG00114 |
0 .00 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 .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 .00 RPM |
YRI_NA19099 |
0 .00 RPM |
YRI_NA19114 |
0 .03 RPM |
YRI_NA19118 |
0 .00 RPM |
YRI_NA19213 |
0 .00 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).