>retro_hsap_1044
ATAGCGTCCCCCATGGCAGCGCAGGCCTGGAAGCTTCTGCAAGCCCTAGCGCTGCTGCCCCGCTTCCTGGTGGCCAGGTC
CCGGGCAGTTCAATTAACCTCCAGAAGATGGCTGAGCCTGCAGGAATGCCAGAGCAAGAAACTGATGTCTGATAACAGAG
TGACAGTTCAAAGATTCTTTGTAGCAGACACTGCGAATGAAGCTCTTGAGGCCGCTAAGAGACTAAATGCAAAAGAAATT
GTTTTAAAAGCCCAGATCTTAGCTGGAGGAAGAGGAAAAGGTGTCTTCAATAGTGGTTTGAAAAGAGGTGTTCATTTAAC
AAAAGACCCTAATGTTGTGGGACAGCTGGCTAAACAGATGATTGGGTACAATCTAGCGACAAAACAAACTCCAAAAGAAG
GTGTGAAAGTTAACAAGGTGATGGTTGCTGAAGCCTTGGACATTTCCAGAGAAACCTACCTGGCAATTCTGATGGACCAG
TCCTGCAATGGCCCCATGCTGGTGGGCAGCCCCCAGGAGGGCATCGACATTGAAGAGGTGGCTGCTTCAAACCCAGAGCT
CATTTTTAAGGAGCAAATTGACATTTTTGAAGGAATAAAGGACAGCCAAGCTCAGCGGATGGCAGAAAATCTAGGCTTCG
TTGGGCCTTTGAAAAGCCAGGCTGCAGATCAAATTACGAAGCTGTATAATCTCTTCCTGAAAATTGATGCTACTCAGGTG
GAAGTGAATCCCTTTGGTGAAACTCCAGAAGGACAAGTTGTCTGTTTTGATGCCAAGATAAACTTTGATGACAATGCAGA
ATTCCAACAAAAAGACATATTTGCTATGGACGACAAATCAGAGAATGAGCCCATTGAAAATGAAGCTGCCAAATATGATC
TAAAATACATAGGACTAGATGGGAACATTGCCTGCTTTGTGAATGGTGCTGGGCTCGCCATGGCTACTTGTGATATCATT
TTCCTTAATGGTAGGAAGCCAGCCAGCTTCTTGGATCTTGGAGGTGGTGTAAAGGAAGCTCAAGTATATCAAGCATTCAC
ATTGCCCACAGCTGATCCTAAGGTTGAAGCCATCCTTGTCAATATTTTTGGTGGTATCGTCAACTGTGCCATCATTGCCA
ATGGGATCACCAAAGCCTGCCAGGAGCTAGAACTCAAGGTGCCCCTTGTGGTTTGGCTTGAAGGAACCAACGTCCAAGAG
GCCCAGGAAATACTCAACAGCAGACTCCCCATTACTTCAGCCGTTGACCTGGAGGATGCAGCCAAGAAGGCTGTGGCCAG
TGTGGCCAAGAAG
ORF - retro_hsap_1044 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
89.81 % |
Parental protein coverage: |
100. % |
Number of stop codons detected: |
0 |
Number of frameshifts detected |
0 |
Retrocopy - Parental Gene Alignment:
Parental | MASPVAAQAGKLLRALALRPRFLAAGSQAVQLTSRRWLNLQEYQSKKLMSDNGVRVQRFFVADTANEALE |
| .ASP.AAQA.KLL.ALAL.PRFL.A.S.AVQLTSRRWL.LQE.QSKKLMSDN.V.VQRFFVADTANEALE |
Retrocopy | IASPMAAQAWKLLQALALLPRFLVARSRAVQLTSRRWLSLQECQSKKLMSDNRVTVQRFFVADTANEALE |
|
Parental | AAKRLNAKEIVLKAQILAGGRGKGVFNSGLKGGVHLTKDPNVVGQLAKQMIGYNLATKQTPKEGVKVNKV |
| AAKRLNAKEIVLKAQILAGGRGKGVFNSGLK.GVHLTKDPNVVGQLAKQMIGYNLATKQTPKEGVKVNKV |
Retrocopy | AAKRLNAKEIVLKAQILAGGRGKGVFNSGLKRGVHLTKDPNVVGQLAKQMIGYNLATKQTPKEGVKVNKV |
|
Parental | MVAEALDISRETYLAILMDRSCNGPVLVGSPQGGVDIEEVAASNPELIFKEQIDIFEGIKDSQAQRMAEN |
| MVAEALDISRETYLAILMD.SCNGP.LVGSPQ.G.DIEEVAASNPE................QAQRMAEN |
Retrocopy | MVAEALDISRETYLAILMDQSCNGPMLVGSPQEGIDIEEVAASNPEXXXXXXXXXXXXXXXXQAQRMAEN |
|
Parental | LGFVGPLKSQAADQITKLYNLFLKIDATQVEVNPFGETPEGQVVCFDAKINFDDNAEFRQKDIFAMDDKS |
| LGFVGPLKSQAADQITKLYNLFLKIDATQVEVNPFGETPEGQVVCFDAKINFDDNAEF.QKDIFAMDDKS |
Retrocopy | LGFVGPLKSQAADQITKLYNLFLKIDATQVEVNPFGETPEGQVVCFDAKINFDDNAEFQQKDIFAMDDKS |
|
Parental | ENEPIENEAAKYDLKYIGLDGNIACFVNGAGLAMATCDIIFLNGGKPANFLDLGGGVKEAQVYQAFKLLT |
| ENEPIENEAAKYDLKYIGLDGNIACFVNGAGLAMATCDIIFLNG.KPA.FLDLGGGVKEAQVYQAF.L.T |
Retrocopy | ENEPIENEAAKYDLKYIGLDGNIACFVNGAGLAMATCDIIFLNGRKPASFLDLGGGVKEAQVYQAFTLPT |
|
Parental | ADPKVEAILVNIFGGIVNCAIIANGITKACRELELKVPLVVRLEGTNVQEAQKILNNSGLPITSAIDLED |
| ADPKVEAILVNIFGGIVNCAIIANGITKAC.ELELKVPLVV.LEGTNVQEAQ.IL.NS.LPITSA.DLED |
Retrocopy | ADPKVEAILVNIFGGIVNCAIIANGITKACQELELKVPLVVWLEGTNVQEAQEIL-NSRLPITSAVDLED |
|
Parental | AAKKAVASVAKK |
| AAKKAVASVAKK |
Retrocopy | AAKKAVASVAKK |
|
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 .46 RPM |
69 .59 RPM |
bodymap2_adrenal |
0 .33 RPM |
54 .71 RPM |
bodymap2_brain |
0 .12 RPM |
27 .12 RPM |
bodymap2_breast |
0 .33 RPM |
79 .09 RPM |
bodymap2_colon |
0 .04 RPM |
123 .83 RPM |
bodymap2_heart |
0 .24 RPM |
89 .92 RPM |
bodymap2_kidney |
0 .31 RPM |
132 .81 RPM |
bodymap2_liver |
0 .11 RPM |
164 .62 RPM |
bodymap2_lung |
0 .02 RPM |
60 .37 RPM |
bodymap2_lymph_node |
0 .07 RPM |
43 .25 RPM |
bodymap2_ovary |
0 .29 RPM |
68 .66 RPM |
bodymap2_prostate |
0 .14 RPM |
93 .41 RPM |
bodymap2_skeletal_muscle |
0 .27 RPM |
120 .69 RPM |
bodymap2_testis |
0 .00 RPM |
45 .70 RPM |
bodymap2_thyroid |
0 .28 RPM |
76 .19 RPM |
bodymap2_white_blood_cells |
0 .14 RPM |
66 .84 RPM |
RNA Polymerase II actvity near the 5' end of retro_hsap_1044 was not detected
No EST(s) were mapped for retro_hsap_1044 retrocopy.
No TSS is located nearby retro_hsap_1044 retrocopy 5' end.
retro_hsap_1044 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_hsap_1044 has 0 orthologous retrocopies within eutheria group .
Parental genes homology:
Parental genes homology involve
10 parental genes, and
13 retrocopies.
Expression level across human populations :
Library |
Retrogene expression |
CEU_NA11831 |
0 .15 RPM |
CEU_NA11843 |
0 .09 RPM |
CEU_NA11930 |
0 .20 RPM |
CEU_NA12004 |
0 .04 RPM |
CEU_NA12400 |
0 .04 RPM |
CEU_NA12751 |
0 .12 RPM |
CEU_NA12760 |
0 .13 RPM |
CEU_NA12827 |
0 .00 RPM |
CEU_NA12872 |
0 .11 RPM |
CEU_NA12873 |
0 .06 RPM |
FIN_HG00183 |
0 .11 RPM |
FIN_HG00277 |
0 .07 RPM |
FIN_HG00315 |
0 .03 RPM |
FIN_HG00321 |
0 .12 RPM |
FIN_HG00328 |
0 .02 RPM |
FIN_HG00338 |
0 .04 RPM |
FIN_HG00349 |
0 .09 RPM |
FIN_HG00375 |
0 .05 RPM |
FIN_HG00377 |
0 .03 RPM |
FIN_HG00378 |
0 .02 RPM |
GBR_HG00099 |
0 .09 RPM |
GBR_HG00111 |
0 .11 RPM |
GBR_HG00114 |
0 .08 RPM |
GBR_HG00119 |
0 .14 RPM |
GBR_HG00131 |
0 .06 RPM |
GBR_HG00133 |
0 .14 RPM |
GBR_HG00134 |
0 .07 RPM |
GBR_HG00137 |
0 .08 RPM |
GBR_HG00142 |
0 .14 RPM |
GBR_HG00143 |
0 .10 RPM |
TSI_NA20512 |
0 .00 RPM |
TSI_NA20513 |
0 .12 RPM |
TSI_NA20518 |
0 .14 RPM |
TSI_NA20532 |
0 .07 RPM |
TSI_NA20538 |
0 .05 RPM |
TSI_NA20756 |
0 .12 RPM |
TSI_NA20765 |
0 .02 RPM |
TSI_NA20771 |
0 .17 RPM |
TSI_NA20786 |
0 .13 RPM |
TSI_NA20798 |
0 .00 RPM |
YRI_NA18870 |
0 .07 RPM |
YRI_NA18907 |
0 .03 RPM |
YRI_NA18916 |
0 .02 RPM |
YRI_NA19093 |
0 .05 RPM |
YRI_NA19099 |
0 .08 RPM |
YRI_NA19114 |
0 .05 RPM |
YRI_NA19118 |
0 .12 RPM |
YRI_NA19213 |
0 .10 RPM |
YRI_NA19214 |
0 .07 RPM |
YRI_NA19223 |
0 .06 RPM |
Indel association:
No indels were associated with its genomic coordinates. Based on Kabza et al. 2015 (
PubMed).