>retro_hsap_840
ACTGAATTGTGCCTAGGTGTTGATGCTTTGGGTCTGAATATTTATGAGCATGATGACAAGTTAACACCTAAAACTGGTTT
TCCGTGGAGTGAAATCAGAAATGTTTCATTTAATGACAAAAAATTTGTTATAAAGCCAATCAATAAAAAGCCACCTGATT
TTGGTTTTTATGCCCCTCACCTGAGAGTCAATAAGCAGATTTTGGCCTTATGTATGGGAAACCACGAACTATACATGCGA
AGAAGGAAGCCTGATACTATTGAAGTATGACAGATGAGGGCTCAGGCTAGGGAGGAGAAACATCAGAAGCAGTTGGAGAG
GGCACAATTAGAGAATAAAAAGAAGAAAAGAGAAATAGCAGAAAAGGAAAGAATAGAATGTGAAAAGGAAGAGCTAATGG
AACGTCTAAAACAAATAGAAGAACAGACGATTAAAGCCCAGAAATAACTAGAAGAACAGACGCAAAAAGCTCTAGAACTG
GATCAAGAATGAAAACAAGCAAAAGAAGCAGCAGAGTGGCTTGAAAAGGAGCGTCGAGCTGCTGAAGAGGCGAAGTCTGC
CATAGCAAAACAAGCTGCCGACCAGAAGAATCAGGAGCAGCTAGCAGCAAAACTTGCTCAATTCACTGCCAAGATTGTAC
TTCTAGAAGAAGCCAAGAAGAAAAAGGAAGAGGAAGCTACTGAGTGGCAACACAAAGCTTTTGCAGCCCAGAAGACTTGG
AAAAGACCAAAGAAGAGTTAAAAACTGTGATGTCTGCCCCCCCCTCCACCTCCACCACCACCAACACCAGTCATTCCTTC
GACAGAAAACGAACATGATGAACATGATGAGATTAATGCTAAGGCTGGTGCTGAATTATCAAATGAAGGGGTAATGAACC
ATAGAAGCAAAGAAGAACATGTAACAGAAACACAGAAAAATGAGCGTGTTAAGAAGCTACTTCAGGCCTTAAGTTCAGAA
TTAGCCCAAGCCAGAGATGAAAGCAAGGAAACACAAAAGGATGTTCTTCAGGCTAAGAATGTTAAAACAGGCCATGGTAA
GTACAAGACTCTGTGACCGATTCGACAAGGCAACACAAAGCAGCGTATCAATGAGTTTGAAGCAATG
ORF - retro_hsap_840 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
80.21 % |
Parental protein coverage: |
61.26 % |
Number of stop codons detected: |
4 |
Number of frameshifts detected |
2 |
Retrocopy - Parental Gene Alignment:
Parental | TELWLGVDALGLNIYEHDDKLTPKIGFPWSEIRNISFNDKKFVIKPIDKKAPDFVFYAPRLRINKRILAL |
| TEL.LGVDALGLNIYEHDDKLTPK.GFPWSEIRN.SFNDKKFVIKPI.KK.PDF.FYAP.LR.NK.ILAL |
Retrocopy | TELCLGVDALGLNIYEHDDKLTPKTGFPWSEIRNVSFNDKKFVIKPINKKPPDFGFYAPHLRVNKQILAL |
|
Parental | CMGNHELYMRRRKPDTIEVQQMKAQAREEKHQKQLERAQLENEKKKREIAEKEKERIEREKEELMERLKQ |
| CMGNHELYMRRRKPDTIEV.QM.AQAREEKHQKQLERAQ..................E.E..ELMERLKQ |
Retrocopy | CMGNHELYMRRRKPDTIEV*QMRAQAREEKHQKQLERAQXXXXXXXXXXXXXXXXECEKE--ELMERLKQ |
|
Parental | IEEQTIKAQKELEEQTRKALELDQERKRAKEEAERLEKERRAAEEAKSAIAKQAADQMKNQEQLAAELAE |
| IEEQTIKAQK.LEEQT.KALELDQE.K.AKE.AE.LEKERRAAEEAKSAIAKQAADQ.KNQEQLAA.LA. |
Retrocopy | IEEQTIKAQK*LEEQTQKALELDQE*KQAKEAAEWLEKERRAAEEAKSAIAKQAADQ-KNQEQLAAKLAQ |
|
Parental | FTAKIALLEEAKKKKEEEATEWQHKAFAAQ-EDLEKTKEELKTVMS-APPPPPPP--PVIPPTENEHDEH |
| FTAKI.LLEEAKKKKEEEATEWQHKAFAAQ.EDLEKTKEELKTVMS....PPPPP..PVIP.TEN..... |
Retrocopy | FTAKIVLLEEAKKKKEEEATEWQHKAFAAQ<EDLEKTKEELKTVMS>XXXPPPPPPTPVIPSTENXXXXX |
|
Parental | DENNAEASAELSNEGVMNHRSEEERVTETQKNERVKKQLQALSSELAQARDETKKTQNDVLHAENVKAGR |
| ...NA.A.AELSNEGVMNHRS.EE.VTETQKNERVKK.LQALSSELAQARDE.K.TQ.DVL.A.NVK.G. |
Retrocopy | XXINAKAGAELSNEGVMNHRSKEEHVTETQKNERVKKLLQALSSELAQARDESKETQKDVLQAKNVKTGH |
|
Parental | DKYKTLRQIRQGNTKQRIDEFEAM |
| .KYKTL..IRQGNTKQRI.EFEAM |
Retrocopy | GKYKTL*PIRQGNTKQRINEFEAM |
|
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 |
155 .94 RPM |
bodymap2_adrenal |
0 .00 RPM |
90 .64 RPM |
bodymap2_brain |
0 .00 RPM |
159 .63 RPM |
bodymap2_breast |
0 .00 RPM |
132 .80 RPM |
bodymap2_colon |
0 .00 RPM |
145 .00 RPM |
bodymap2_heart |
0 .00 RPM |
118 .41 RPM |
bodymap2_kidney |
0 .00 RPM |
129 .71 RPM |
bodymap2_liver |
0 .00 RPM |
81 .37 RPM |
bodymap2_lung |
0 .00 RPM |
133 .88 RPM |
bodymap2_lymph_node |
0 .00 RPM |
105 .69 RPM |
bodymap2_ovary |
0 .00 RPM |
218 .79 RPM |
bodymap2_prostate |
0 .00 RPM |
101 .08 RPM |
bodymap2_skeletal_muscle |
0 .00 RPM |
208 .87 RPM |
bodymap2_testis |
0 .23 RPM |
207 .35 RPM |
bodymap2_thyroid |
0 .00 RPM |
150 .61 RPM |
bodymap2_white_blood_cells |
0 .00 RPM |
45 .09 RPM |
RNA Polymerase II actvity near the 5' end of retro_hsap_840 was not detected
No EST(s) were mapped for retro_hsap_840 retrocopy.
No TSS is located nearby retro_hsap_840 retrocopy 5' end.
retro_hsap_840 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_hsap_840 has 0 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 .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 .00 RPM |
CEU_NA12873 |
0 .03 RPM |
FIN_HG00183 |
0 .00 RPM |
FIN_HG00277 |
0 .04 RPM |
FIN_HG00315 |
0 .03 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 .02 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 .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 .03 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).