>retro_hsap_3622
ATGTACAGCAAAGGCAAGAGTAACAGCAGCATTAACCCATGTGACAGCCACACCTTGGTGAAGTTAGCACTTTACATATA
TGAATATCTGCTCCATGTAGGAGTTCAGAGATCATCCCGAACATTTTTATCAGAGATAAGATGGGGGAAAAAATTGGGAG
AACCACCAGGATTCTTACATTCCTGGTGTTGTGTATTTTGGGATCTCTATTTGGCAGCTCCAGAGCCAAAGGAAACATGT
GAACACTCAAGTGTAACAAAAAACTTCCATGATTATCTTTTTATATCACCTTGGTACCCTGGAGGTCCAAGGTTCCCATT
GAAGATACCTAAAGAGGCACTTGGAAGTATCCTAGGAAGTCAGCCATTACTCCCCAGTGGAATCCAACTTGACAACAAGG
ACATTTAAGTATGGGTGGGCCAATTTCTCCAAGAGGAATGGTGCCCTGAGGGCCACAGTCTGATCCTTGGTTGTCAGTAC
AGAATGATGAAGGTGCAATGAGATGCCCAGTGAATGCTTTAGGTGGCTCTGGAATGCCTAGAATGAACATGGGTCTGGAG
GGTGGCAGATCTTGGCCAAACCCAACAAATGCCAATTCAGTACCATACTCCTCAACATCTCCTGGGAATTACATAGGCCC
TCCAGGAGGTGAGGTCCACAGGAACACCCGTCATGTCTAGTCTAGCAGATTTAATCAACCCTGGAGAT
ORF - retro_hsap_3622 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
68.83 % |
Parental protein coverage: |
71.98 % |
Number of stop codons detected: |
2 |
Number of frameshifts detected |
3 |
Retrocopy - Parental Gene Alignment:
Parental | MYGKGKSNSSAVPSDSQAREKLALYVYEYLLHVGAQKSAQTFLSEIRWEKNITLGEPPGFLHSWWCVFWD |
| MY.KGKSNSS..P.DS....KLALY.YEYLLHVG.Q.S..TFLSEIRW.K...LGEPPGFLHSW.CVFWD |
Retrocopy | MYSKGKSNSSINPCDSHTLVKLALYIYEYLLHVGVQRSSRTFLSEIRWGKK--LGEPPGFLHSWCCVFWD |
|
Parental | LYCAAPERRETCEHSSEAKAFHDYPFMSPRYPGGPRPPLRIPNQALGGV-PGSQPLLPSGMDPTRQQGHP |
| LY.AAPE..ETCEHSS..K.FHDY.F.SP.YPGGPR.PL.IP..ALG...P......P....PT.QQGH. |
Retrocopy | LYLAAPEPKETCEHSSVTKNFHDYLFISPWYPGGPRFPLKIPKEALGSI<PRKSAITPQ-WNPT*QQGHL |
|
Parental | NMGGPMQRMTPPRGMVPLGPQSDPWLSLQNYGGAMRPPLNALGGPGMPGMNMGPGGGRPWPNPTNANSIP |
| .MGGP......PRGMVP.GPQSDPWLS.QN..GAMR.P.NALGG.GMP.MNMG..GGR.WPNPTNANS.P |
Retrocopy | SMGGPIS----PRGMVP*GPQSDPWLSVQNDEGAMRCPVNALGGSGMPRMNMGLEGGRSWPNPTNANSVP |
|
Parental | YSSASPGNYVGPPGGG-GP-PGTPIMPSPADSTNSGD |
| YSS.SPGNY.GPPGG..GP..GTP.M.S.AD..N.GD |
Retrocopy | YSSTSPGNYIGPPGGE<GP<TGTPVMSSLADLINPGD |
|
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 |
41 .74 RPM |
bodymap2_adrenal |
0 .00 RPM |
27 .96 RPM |
bodymap2_brain |
0 .00 RPM |
59 .16 RPM |
bodymap2_breast |
0 .00 RPM |
46 .93 RPM |
bodymap2_colon |
0 .00 RPM |
55 .55 RPM |
bodymap2_heart |
0 .00 RPM |
29 .57 RPM |
bodymap2_kidney |
0 .00 RPM |
25 .04 RPM |
bodymap2_liver |
0 .00 RPM |
3 .76 RPM |
bodymap2_lung |
0 .00 RPM |
40 .52 RPM |
bodymap2_lymph_node |
0 .00 RPM |
38 .05 RPM |
bodymap2_ovary |
0 .00 RPM |
105 .31 RPM |
bodymap2_prostate |
0 .00 RPM |
74 .15 RPM |
bodymap2_skeletal_muscle |
0 .00 RPM |
25 .55 RPM |
bodymap2_testis |
0 .02 RPM |
46 .23 RPM |
bodymap2_thyroid |
0 .00 RPM |
36 .27 RPM |
bodymap2_white_blood_cells |
0 .00 RPM |
39 .14 RPM |
RNA Polymerase II actvity near the 5' end of retro_hsap_3622 was not detected
No EST(s) were mapped for retro_hsap_3622 retrocopy.
No TSS is located nearby retro_hsap_3622 retrocopy 5' end.
retro_hsap_3622 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_hsap_3622 has 0 orthologous retrocopies within eutheria group .
Parental genes homology:
Parental genes homology involve
5 parental genes, and
10 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 .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 .00 RPM |
YRI_NA19223 |
0 .00 RPM |
Indel association:
No indels were associated with its genomic coordinates. Based on Kabza et al. 2015 (
PubMed).