>retro_hsap_3048
AAATTCATTAGAAGGGACCATTTGCTTGACGAAGCTGAAGGTCTTTTACCAGATGACGAGCTTACATTATTTTGTGAGAT
GAGTGTGGTACTAGATTCAGTAAACATATCAGGACATACTAATACAAATACTTTGAAGGTGGCTGAGTGTCGACTAGGAG
AAGATTTATGTAATCTCTGTGAAAACACAAGATGTACAGACTGTAGTTTTTTGTGAGAGGACAAGAATTTAAAGCTCATA
AATCTGCTGGTACCTCCATCCCCAGTTTTTAATGCCATGTTTGAACATGAAATGGAAGAAAACATAAAGAATCGAGTGGA
AATAAATTATTTAGGCCCTGATGTTTTTAAAGAAATGATGAGATTCATTAACACAGGGAAATAACTAAACCTTGACAAAA
TGGCTGACAACTTGTTGGCAGCTGCAGACAAACATGCACTGGGAACAGCTGAAAGTCATGTGTGAGGAAGCTTTGTGTAG
TAATCCCTCAGTAGAAAATGTTGTTGATACACTTGTCCTTGCAGATTTGCACATTGCAGAACAGTTGAAAGCAAAAGCCA
TAGACATTATTAGTAGGTGCAGTGTACTTCGACAACTTGGGTGTAAACATAAGAAAAACTGGAACAGCAACCAAGCAACC
GACATAATGGAAACATCAAGGTGGAAGTCCATGATTCAGTCTCACTCTTACTTAGCAGCAGAAGCCTTCTGAGCACTAGC
ATCTGCACAGTGTCCACAGTTTGGCATTCCACACACACGGCTAAAACAGTCC
ORF - retro_hsap_3048 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
82.38 % |
Parental protein coverage: |
65.82 % |
Number of stop codons detected: |
2 |
Number of frameshifts detected |
3 |
Retrocopy - Parental Gene Alignment:
Parental | KFIRRDFLLDEANGLLPDDKLTLFCEVSVVQDSVNISGHTNTNTLKVPECRLAEDLGNLWENTRFTDCS- |
| KFIRRD.LLDEA.GLLPDD.LTLFCE.SVV.DSVNISGHTNTNTLKV.ECRL.EDL.NL.ENTR.TDCS. |
Retrocopy | KFIRRDHLLDEAEGLLPDDELTLFCEMSVVLDSVNISGHTNTNTLKVAECRLGEDLCNLCENTRCTDCS< |
|
Parental | FFVRGQEFKAHKSVLAARSPVF-NAMFEHEMEESKKNRVEINDLDPEVFKEMMRFIYTGRAPNLDKMADN |
| FFVRGQEFKAHKS......P.F.NAMFEHEMEE..KNRVEIN.L.P.VFKEMMRFI.TG...NLDKMADN |
Retrocopy | FFVRGQEFKAHKSA-GTSIPSF>NAMFEHEMEENIKNRVEINYLGPDVFKEMMRFINTGK*LNLDKMADN |
|
Parental | LLAAADKYAL-ERLKVMCEEALCSNLSVENVADTLVLADLHSAEQLKAQAIDFINRCSVLRQLGCKDGKN |
| LLAAADK.AL.E.LKVMCEEALCSN.SVENV.DTLVLADLH.AEQLKA.AID.I.RCSVLRQLGCK..KN |
Retrocopy | LLAAADKHAL>EQLKVMCEEALCSNPSVENVVDTLVLADLHIAEQLKAKAIDIISRCSVLRQLGCKHKKN |
|
Parental | WNSNQATDIMETSGWKSMIQSHPHLVAEAFRALASAQCPQFGIPRKRLKQS |
| WNSNQATDIMETS.WKSMIQSH..L.AEAF.ALASAQCPQFGIP..RLKQS |
Retrocopy | WNSNQATDIMETSRWKSMIQSHSYLAAEAF*ALASAQCPQFGIPHTRLKQS |
|
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 |
44 .53 RPM |
bodymap2_adrenal |
0 .00 RPM |
30 .19 RPM |
bodymap2_brain |
0 .00 RPM |
40 .57 RPM |
bodymap2_breast |
0 .00 RPM |
45 .12 RPM |
bodymap2_colon |
0 .00 RPM |
64 .97 RPM |
bodymap2_heart |
0 .00 RPM |
27 .89 RPM |
bodymap2_kidney |
0 .00 RPM |
36 .94 RPM |
bodymap2_liver |
0 .00 RPM |
14 .45 RPM |
bodymap2_lung |
0 .00 RPM |
51 .48 RPM |
bodymap2_lymph_node |
0 .00 RPM |
47 .53 RPM |
bodymap2_ovary |
0 .00 RPM |
42 .76 RPM |
bodymap2_prostate |
0 .00 RPM |
59 .08 RPM |
bodymap2_skeletal_muscle |
0 .00 RPM |
14 .19 RPM |
bodymap2_testis |
0 .00 RPM |
37 .95 RPM |
bodymap2_thyroid |
0 .00 RPM |
35 .74 RPM |
bodymap2_white_blood_cells |
0 .00 RPM |
140 .28 RPM |
RNA Polymerase II actvity near the 5' end of retro_hsap_3048 was not detected
No EST(s) were mapped for retro_hsap_3048 retrocopy.
No TSS is located nearby retro_hsap_3048 retrocopy 5' end.
retro_hsap_3048 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_hsap_3048 has 0 orthologous retrocopies within eutheria group .
Parental genes homology:
Parental genes homology involve
8 parental genes, and
14 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 .00 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 .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 .00 RPM |
GBR_HG00114 |
0 .00 RPM |
GBR_HG00119 |
0 .02 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 .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 .00 RPM |
YRI_NA19118 |
0 .02 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).