>retro_hsap_4237
ATGTTGTCCGGGTTAAGCGTAGTTTCCACCACTTGTACTTTGGCATGTCTACATTTACACATAAAAGAAAAAGGCAAGCC
ACTTATGCTGAATCCAAGAACAAACAAGGGAATGGCATTTACTTTACAAGAACGACAGATGCTTGGTCTTCAAGGGCTTC
TACCTCCCCAAATACAGACATAAGATATTCAAGCCTTACGATTCCATAGAAACTTGAAAAAAATGACTAGCCCTTCGGAA
AACTATATCTACATAATGGGAATACAAGAAAGAAATGATAAATTGTTTTATAGAATACTGCAAGATGACACGGAGAGTTT
AATGCCAATTGCATATACACCGACGGTTGGTCTTGTCTGCTCCCAGTGTGGACACCTCTTTAGAAGACCTAAGGGATTAT
TTATTTCCATCTCAGACAGAGGTCATGTTAGATCAATTGTGGATAAGTGGCCAGAAAATCATGTTAAGGCTGTTTTAGTG
ACTGATGGAGAGAGAATTCTGGGTCATGGAGATCTGGGTGTCTATGGAATGGGAATTCCAGTAGGAAAAATTTGTTTGTA
TACAGTTTGTCCAGGAATATGGCCTGATAGATGCCTTCTGGTGTGTATTGATGTGGGAGCTGATAATATCGCACTCTTAA
AAGGCACATTTTACATGGGCTTGTACCAGAAACGAGATCGCACACAACAGTCTGATGATCCAATTGATGAGTTTATGAAA
GCTATTACTGACAGATATGGCTGGAACACACTCCTTCAGTTTGAAGGTTTTGGACATCATAATGCATTCAGATTCTTGAG
AAAATACCAATAAAAATGTTGCACTTTCAATGATGATATTCAAGGGACAGCTGCAGTAGCTCTAATAGGTCTTCTTGCAA
CACAAAAAGTTACTAGTAAACCAATCTCCGAACACAAAATCTTATTCCTTGGAGCAGGAGAGATTACTCTTAGAATTGCA
AATCTTGTAGTATGTCTATGGTAGAAAATGGCCTGTCAGAAGAAGAGGCACAAAAGAAAATCTGGATGTTTGACAAGTAT
GGTTTATTAGTTTAGGGGCAGAAAGCAAAAATAGATTGTTATCAGGAACCATTTACTTACCCAGTCCCAGAGAGCATACC
TGATACTTTTGAAGATGCAGTGAATATAATGAAGACTTCAACTACAATTGGAGTTGCAGGTGCTGGCCGTCTTTTCACTC
CTGATGTAATCAGAGCCATTGGCTGTATCAATGAAAGGCCTGTAATATTTGCATTAAGTAATCCTACAGCACAGGCGGAG
TGC
ORF - retro_hsap_4237 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
87.18 % |
Parental protein coverage: |
89.35 % |
Number of stop codons detected: |
3 |
Number of frameshifts detected |
1 |
Retrocopy - Parental Gene Alignment:
Parental | MLSRLRVVSTTCTLACRHLHIKEKGKPLMLNPRTNKGMAFTLQERQMLGLQGLLPPKIETQDIQALRFHR |
| MLS.L.VVSTTCTLAC.HLHIKEKGKPLMLNPRTNKGMAFTLQERQMLGLQGLLPP.I.T.DIQALRFHR |
Retrocopy | MLSGLSVVSTTCTLACLHLHIKEKGKPLMLNPRTNKGMAFTLQERQMLGLQGLLPPQIQT*DIQALRFHR |
|
Parental | NLKKMTSPLEKYIYIMGIQERNEKLFYRILQDDIESLMPIVYTPTVGLACSQYGHIFRRPKGLFISISDR |
| NLKKMTSP.E.YIYIMGIQERN.KLFYRILQDD.ESLMPI.YTPTVGL.CSQ.GH.FRRPKGLFISISDR |
Retrocopy | NLKKMTSPSENYIYIMGIQERNDKLFYRILQDDTESLMPIAYTPTVGLVCSQCGHLFRRPKGLFISISDR |
|
Parental | GHVRSIVDNWPENHVKAVVVTDGERILGLGDLGVYGMGIPVGKLCLYTACAGIRPDRCLPVCIDVGTDNI |
| GHVRSIVD.WPENHVKAV.VTDGERILG.GDLGVYGMGIPVGK.CLYT.C.GI.PDRCL.VCIDVG.DNI |
Retrocopy | GHVRSIVDKWPENHVKAVLVTDGERILGHGDLGVYGMGIPVGKICLYTVCPGIWPDRCLLVCIDVGADNI |
|
Parental | ALLKDPFYMGLYQKRDRTQQYDDLIDEFMKAITDRYGRNTLIQFEDFGNHNAFRFLRKYREKYCTFNDDI |
| ALLK..FYMGLYQKRDRTQQ.DD.IDEFMKAITDRYG.NTL.QFE.FG.HNAFRFLRKY..K.CTFNDDI |
Retrocopy | ALLKGTFYMGLYQKRDRTQQSDDPIDEFMKAITDRYGWNTLLQFEGFGHHNAFRFLRKYQ*KCCTFNDDI |
|
Parental | QGTAAVALAGLLAAQKVISKPISEHKILFLGAGEAALGIANLIV-MSMVENGLSEQEAQKKIWMFDKYGL |
| QGTAAVAL.GLLA.QKV.SKPISEHKILFLGAGE..L.IANL.V.MSMVENGLSE.EAQKKIWMFDKYGL |
Retrocopy | QGTAAVALIGLLATQKVTSKPISEHKILFLGAGEITLRIANLVV<MSMVENGLSEEEAQKKIWMFDKYGL |
|
Parental | LVKGRKAKIDSYQEPFTHSAPESIPDTFEDAVNILKPSTIIGVAGAGRLFTPDVIRAMASINERPVIFAL |
| LV.G.KAKID.YQEPFT...PESIPDTFEDAVNI.K.ST.IGVAGAGRLFTPDVIRA...INERPVIFAL |
Retrocopy | LV*GQKAKIDCYQEPFTYPVPESIPDTFEDAVNIMKTSTTIGVAGAGRLFTPDVIRAIGCINERPVIFAL |
|
Parental | SNPTAQAEC |
| SNPTAQAEC |
Retrocopy | SNPTAQAEC |
|
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 |
36 .50 RPM |
bodymap2_adrenal |
0 .00 RPM |
43 .03 RPM |
bodymap2_brain |
0 .00 RPM |
47 .63 RPM |
bodymap2_breast |
0 .00 RPM |
27 .72 RPM |
bodymap2_colon |
0 .00 RPM |
49 .06 RPM |
bodymap2_heart |
0 .00 RPM |
70 .26 RPM |
bodymap2_kidney |
0 .02 RPM |
44 .11 RPM |
bodymap2_liver |
0 .00 RPM |
20 .09 RPM |
bodymap2_lung |
0 .00 RPM |
26 .74 RPM |
bodymap2_lymph_node |
0 .00 RPM |
36 .15 RPM |
bodymap2_ovary |
0 .00 RPM |
54 .48 RPM |
bodymap2_prostate |
0 .00 RPM |
54 .14 RPM |
bodymap2_skeletal_muscle |
0 .00 RPM |
21 .52 RPM |
bodymap2_testis |
0 .00 RPM |
79 .79 RPM |
bodymap2_thyroid |
0 .00 RPM |
33 .20 RPM |
bodymap2_white_blood_cells |
0 .00 RPM |
100 .70 RPM |
RNA Polymerase II actvity near the 5' end of retro_hsap_4237 was not detected
No EST(s) were mapped for retro_hsap_4237 retrocopy.
No TSS is located nearby retro_hsap_4237 retrocopy 5' end.
retro_hsap_4237 was not experimentally validated.
Retrocopy orthology:
Retrocopy
retro_hsap_4237 has 3 orthologous retrocopies within
eutheria group
.
Parental genes homology:
Parental genes homology involve
5 parental genes, and
6 retrocopies.
Expression level across human populations :
Library |
Retrogene expression |
CEU_NA11831 |
0 .04 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 .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 .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 .00 RPM |
YRI_NA19213 |
0 .00 RPM |
YRI_NA19214 |
0 .02 RPM |
YRI_NA19223 |
0 .02 RPM |
Indel association:
No indels were associated with its genomic coordinates. Based on Kabza et al. 2015 (
PubMed).