>retro_hsap_3273
GCGCCGCGGGGCTGCTGGCCCCGGCCCCGCCCGGGCTGGAGCGTCCCCGGGGAGGACGAAGAGCTGGAGAGCGCCAAGGA
CGACGAGCGCAGCTGCCGGGCCGCGAGTCGGACGAAGACACTGAGGATGCTAGTGAAACTGACCTGGCAAAGCATGATGA
AGAAGACTATGGGGAAGTGAAGGAACAGATGTATCAGGACAAACTGGCTTCTCTCGAGAGGCAGTTGCAACAACTACAAG
AAGGTACATTACAGGAATATCAGAAGAGAATGAAAAAACTAGGTCAGCAGTACAAAGAGAGGATACGGAATGCTGAACTC
TTCCTCCAGCTGGAAACTGAACAAGTGGGACGAAATTACATGAAAGAAAAGAAGGCAGCAGTGAAAGAATTTGAAGACAA
GAAGGTTGAGCTGAAAGAGAACCTGATTGCTGAGCTAGCAGAAGAGAAGAAAATGATTGAAAACGAAATGCTGACAATGG
AACTGAATGGAGATTCTATGCAGGTGAGACCTATCATGACCAGAAAGTTGCGGAGGCGACCAAATGATCCCGTCCCCATC
CCAGACAAGAGGAGGAAACCTGCTCCAGCCCAGCTAAACTATTTGTTAACAGATGAACAGATCATGGAGGATCTGAGAAC
ATTAAATAAGCTTAAGTCACCCAAGAGACCAGCATCTCCATCCTCTCCTGAGCACTTGCCTGCGACACCCGCGGAATCTC
CAGCCCAGAGGTTTGAAGCTCGGATAGAAGATGGCAAACTGCACTATGACAAAAGATGGTACCACAAGAGCCAGGCCATC
TATCTGGAGTCAAAGGACAACCAGAAACTGAGCTGCGTGATCAGTTCTGTAGGAGCCAATGAGATCTGGGTGAGGAAGAC
AAGTGACAGCACCAAGATGAGGATCTACCTGGGCCAGCTTCAGCGCGGGCTCTTCGTCATCCACCGGCGCTCAGCTGCT
ORF - retro_hsap_3273 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
91.28 % |
Parental protein coverage: |
97.26 % |
Number of stop codons detected: |
0 |
Number of frameshifts detected |
1 |
Retrocopy - Parental Gene Alignment:
Parental | APAQAGAPPAPEY-YPEEDEELESAEDDERSCR-GRESDEDTEDASETDLAKHDEEDYVEMKEQMYQDKL |
| AP......P.P....P.EDEELESA.DDERSCR.GRESDEDTEDASETDLAKHDEEDY.E.KEQMYQDKL |
Retrocopy | APRGCWPRPRPGWSVPGEDEELESAKDDERSCR<GRESDEDTEDASETDLAKHDEEDYGEVKEQMYQDKL |
|
Parental | ASLKRQLQQLQEGTLQEYQKRMKKLDQQYKERIRNAELFLQLETEQVERNYIKEKKAAVKEFEDKKVELK |
| ASL.RQLQQLQEGTLQEYQKRMKKL.QQYKERIRNAELFLQLETEQV.RNY.KEKKAAVKEFEDKKVELK |
Retrocopy | ASLERQLQQLQEGTLQEYQKRMKKLGQQYKERIRNAELFLQLETEQVGRNYMKEKKAAVKEFEDKKVELK |
|
Parental | ENLIAELEEKKKMIENEKLTMELTGDSMEVKPIMTRKLRRRPNDPVPIPDKRRKPAPAQLNYLLTDEQIM |
| ENLIAEL.E.KKMIENE.LTMEL.GDSM.V.PIMTRKLRRRPNDPVPIPDKRRKPAPAQLNYLLTDEQIM |
Retrocopy | ENLIAELAEEKKMIENEMLTMELNGDSMQVRPIMTRKLRRRPNDPVPIPDKRRKPAPAQLNYLLTDEQIM |
|
Parental | EDLRTLNKLKSPKRPASPSSPEHLPATPAESPAQRFEARIEDGKLYYDKRWYHKSQAIYLESKDNQKLSC |
| EDLRTLNKLKSPKRPASPSSPEHLPATPAESPAQRFEARIEDGKL.YDKRWYHKSQAIYLESKDNQKLSC |
Retrocopy | EDLRTLNKLKSPKRPASPSSPEHLPATPAESPAQRFEARIEDGKLHYDKRWYHKSQAIYLESKDNQKLSC |
|
Parental | VISSVGANEIWVRKTSDSTKMRIYLGQLQRGLFVIRRRSAA |
| VISSVGANEIWVRKTSDSTKMRIYLGQLQRGLFVI.RRSAA |
Retrocopy | VISSVGANEIWVRKTSDSTKMRIYLGQLQRGLFVIHRRSAA |
|
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 .52 RPM |
44 .80 RPM |
bodymap2_adrenal |
0 .04 RPM |
45 .85 RPM |
bodymap2_brain |
0 .33 RPM |
32 .68 RPM |
bodymap2_breast |
0 .64 RPM |
47 .90 RPM |
bodymap2_colon |
0 .50 RPM |
67 .85 RPM |
bodymap2_heart |
0 .07 RPM |
33 .43 RPM |
bodymap2_kidney |
0 .52 RPM |
60 .90 RPM |
bodymap2_liver |
0 .28 RPM |
18 .57 RPM |
bodymap2_lung |
0 .23 RPM |
48 .70 RPM |
bodymap2_lymph_node |
0 .22 RPM |
56 .58 RPM |
bodymap2_ovary |
0 .44 RPM |
73 .56 RPM |
bodymap2_prostate |
0 .52 RPM |
86 .81 RPM |
bodymap2_skeletal_muscle |
0 .04 RPM |
28 .83 RPM |
bodymap2_testis |
1 .28 RPM |
71 .60 RPM |
bodymap2_thyroid |
1 .49 RPM |
65 .98 RPM |
bodymap2_white_blood_cells |
0 .69 RPM |
63 .89 RPM |
RNA Polymerase II actvity near the 5' end of retro_hsap_3273 was not detected
No EST(s) were mapped for retro_hsap_3273 retrocopy.
No TSS is located nearby retro_hsap_3273 retrocopy 5' end.
retro_hsap_3273 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_hsap_3273 has 0 orthologous retrocopies within eutheria group .
Parental genes homology:
Parental genes homology involve
2 parental genes, and
2 retrocopies.
Expression level across human populations :
Library |
Retrogene expression |
CEU_NA11831 |
0 .26 RPM |
CEU_NA11843 |
0 .09 RPM |
CEU_NA11930 |
0 .20 RPM |
CEU_NA12004 |
0 .19 RPM |
CEU_NA12400 |
0 .14 RPM |
CEU_NA12751 |
0 .39 RPM |
CEU_NA12760 |
0 .45 RPM |
CEU_NA12827 |
0 .28 RPM |
CEU_NA12872 |
0 .22 RPM |
CEU_NA12873 |
0 .29 RPM |
FIN_HG00183 |
0 .22 RPM |
FIN_HG00277 |
0 .48 RPM |
FIN_HG00315 |
0 .14 RPM |
FIN_HG00321 |
0 .27 RPM |
FIN_HG00328 |
0 .19 RPM |
FIN_HG00338 |
0 .21 RPM |
FIN_HG00349 |
0 .17 RPM |
FIN_HG00375 |
0 .44 RPM |
FIN_HG00377 |
0 .30 RPM |
FIN_HG00378 |
0 .34 RPM |
GBR_HG00099 |
0 .29 RPM |
GBR_HG00111 |
0 .28 RPM |
GBR_HG00114 |
0 .29 RPM |
GBR_HG00119 |
0 .29 RPM |
GBR_HG00131 |
0 .46 RPM |
GBR_HG00133 |
0 .29 RPM |
GBR_HG00134 |
0 .35 RPM |
GBR_HG00137 |
0 .22 RPM |
GBR_HG00142 |
0 .19 RPM |
GBR_HG00143 |
0 .26 RPM |
TSI_NA20512 |
0 .08 RPM |
TSI_NA20513 |
0 .41 RPM |
TSI_NA20518 |
0 .28 RPM |
TSI_NA20532 |
0 .31 RPM |
TSI_NA20538 |
0 .55 RPM |
TSI_NA20756 |
0 .29 RPM |
TSI_NA20765 |
0 .37 RPM |
TSI_NA20771 |
0 .48 RPM |
TSI_NA20786 |
0 .29 RPM |
TSI_NA20798 |
0 .31 RPM |
YRI_NA18870 |
0 .30 RPM |
YRI_NA18907 |
0 .35 RPM |
YRI_NA18916 |
0 .34 RPM |
YRI_NA19093 |
0 .60 RPM |
YRI_NA19099 |
0 .51 RPM |
YRI_NA19114 |
0 .29 RPM |
YRI_NA19118 |
0 .21 RPM |
YRI_NA19213 |
0 .45 RPM |
YRI_NA19214 |
0 .25 RPM |
YRI_NA19223 |
0 .48 RPM |
Indel association:
No indels were associated with its genomic coordinates. Based on Kabza et al. 2015 (
PubMed).