>retro_hsap_4173
ATGGCATGGATTAAAAGGAAATTTGGTAAGTGGCCTCCATTTAAACGACTTACTAGGGAAGCTATGTGAAATTATTTAAA
AGGGTAAGGGGATCAAATAGTACTTAGCCTTCATGCAAAAGTTGTACAGAAGTCATATGGAAATGAAAAAAGGTTTTTTT
TGCCCTCCCCCTTGTGTATATCTTATGGGCAGTGGATGGAAGAAAATAAAATAACAAATGAAATGCGATGGTTGTTCTGA
ACAAGGGTCTCAACCAAGTGCATTTATTGGCATAGGAAATAGTGACCAAGAAATGCAGCAGCTAAACTTGGAAGGAAAGA
ACTATTGCACAGCCAAAACATTGTACATATCTGATTTAGACAAGCAAAAGCACTTCATGTTGTCTGTAAAGGTGTTCTAT
GGCAACAGTGATGACATTGGTGTGTTCCTCAGCAAGTCGTCCAAACCTTCCAAAAAGAAGCAGTCATTGAAAAATGCTGA
CTTATGCATTGCCTCAGGAAAAAAGGTGGCTCTGTTTAATCGACTACTATCCCAGACAGTTAGTACCAGATACTTGCACG
TAGAAAGAGGTAATTTTCATGCTAGTTCACAGCAATGGGGAGCATTTTACATTATTCTTGGATGATGATGGATCAGAAGG
AGAAGAATTCACAGTCTGAGATGGCTACATTCATTATGGACAAACAGTCAAACTTGTGTGCTCAGTTACTGGCATGGCAC
TCCCAAGATTGATAATTAGGAAAGTTGATAAGCAGACCACATTATTGGATGCAGATGATCCTGTGTCACAACTCCATAAA
TGTGCATTTGACCTTGAGGATACAGAAAGAAAGTACTTATGCCTTTCTCAAGAAAGAATAATTCAATTTCAGGCCACTCC
ATGCCCAAAAGAACCAAATAAAGAGAAGATAAATGATGGTGCTTCCTGGGCAATCATTAGCACACATAAGGCGAAGCATA
CATTTTATGAGAGAGTGGGCCCTGTCCTTGCCCTGGTCATGCCTCCGCCTGTCGTAGAGAGCCTTAAGTTGAATGGCGGT
GGGGACGAACCAATGCTTGAACTTACAGGACAGAATTTCACTCCAAATTTACAAGTGTGGTTTGGGGATGTAGAAGCTGA
AGCTATGTACAGGTGTGGAGAGAGTATGCTCGTGTTGTCCCAGACGTTTCTGCATTCTGAGAAGGTTGGAGATAGGTCCA
GCAACCAATACAGGTTTCAGTAACTTTGGTCCGAAATGATGGAATCATATATTCCACCAGCCTTACCTTTACCTACACAC
CAGAAGCAGGGCCGCGGCCACATTGCAGTGTAGCAGGTGCCATCCTTCAAGCCAGTTCAAGCCACGTGCCCCCTAATGAA
TTAAACACAAACAGCGACGGAAGTTACACAAACGCCAGCACAAATTCAACCAGTGTCACATCATCTACACCAACAGTGGT
ATCC
ORF - retro_hsap_4173 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
84.25 % |
Parental protein coverage: |
100. % |
Number of stop codons detected: |
6 |
Number of frameshifts detected |
3 |
Retrocopy - Parental Gene Alignment:
Parental | MAWIKRKFGERPPPKRLTREAMRNYLKERGDQTVLILHAKVAQKSYGNEKRFFCP-PPCVYLMGSGWKKK |
| MAWIKRKFG..PP.KRLTREAM.NYLK..GDQ.VL.LHAKV.QKSYGNEKR...P.PPCVYLMGSGWKK. |
Retrocopy | MAWIKRKFGKWPPFKRLTREAM*NYLKG*GDQIVLSLHAKVVQKSYGNEKRXXXP>PPCVYLMGSGWKKI |
|
Parental | KEQMERDGCSEQESQPCAFIGIGNSDQEMQQLNLEGKNYCTAKTLYISDSDKRKHFMLSVKMFYGNSDDI |
| K.QM..DGCSEQ.SQP.AFIGIGNSDQEMQQLNLEGKNYCTAKTLYISD.DK.KHFMLSVK.FYGNSDDI |
Retrocopy | K*QMKCDGCSEQGSQPSAFIGIGNSDQEMQQLNLEGKNYCTAKTLYISDLDKQKHFMLSVKVFYGNSDDI |
|
Parental | GVFLSKRIKVISKPSKKKQSLKNADLCIASGTKVALFNRLRSQTVSTRYLHVEGGNFHASSQQW-GAFFI |
| GVFLSK.....SKPSKKKQSLKNADLCIASG.KVALFNRL.SQTVSTRYLHVE.GNFH..S.Q..G..F. |
Retrocopy | GVFLSKS----SKPSKKKQSLKNADLCIASGKKVALFNRLLSQTVSTRYLHVERGNFH-ASSQQ>GEHFT |
|
Parental | HLLDDDESEGEEFTVRDGYIHYGQTVKLVCSVTGMALPRLIIRKVDKQTALLDADDPVSQLHKCAFYLKD |
| ..LDDD.SEGEEFTV.DGYIHYGQTVKLVCSVTGMALPRLIIRKVDKQT.LLDADDPVSQLHKCAF.L.D |
Retrocopy | LFLDDDGSEGEEFTV*DGYIHYGQTVKLVCSVTGMALPRLIIRKVDKQTTLLDADDPVSQLHKCAFDLED |
|
Parental | TERMYLCLSQERIIQFQATPCPKEPNKEMINDGASWTIISTDKAEYTFYEGMGPVLAPVTPVPVVESLQL |
| TER.YLCLSQERIIQFQATPCPKEPNKE.INDGASW.IIST.KA..TFYE..GPVLA.V.P.PVVESL.L |
Retrocopy | TERKYLCLSQERIIQFQATPCPKEPNKEKINDGASWAIISTHKAKHTFYERVGPVLALVMPPPVVESLKL |
|
Parental | NGGGDVAMLELTGQNFTPNLRVWFGDVEAETMYRCGESMLC-VVPDISAFREGWRWVRQPVQVPVTLVRN |
| NGGGD..MLELTGQNFTPNL.VWFGDVEAE.MYRCGESML..VVPD.SAF.EGWR.V.QP.QV.VTLVRN |
Retrocopy | NGGGDEPMLELTGQNFTPNLQVWFGDVEAEAMYRCGESMLV<VVPDVSAF*EGWR*VQQPIQVSVTLVRN |
|
Parental | DGIIYSTSLTFTYTPEPGPRPHCSAAGAILRANSSQVPPNESNTNSEGSYTNASTNSTSVTSSTATVVS |
| DGIIYSTSLTFTYTPE.GPRPHCS.AGAIL.A.SS.VPPNE.NTNS.GSYTNASTNSTSVTSST.TVVS |
Retrocopy | DGIIYSTSLTFTYTPEAGPRPHCSVAGAILQASSSHVPPNELNTNSDGSYTNASTNSTSVTSSTPTVVS |
|
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 |
243 .92 RPM |
bodymap2_adrenal |
0 .00 RPM |
167 .50 RPM |
bodymap2_brain |
0 .00 RPM |
162 .25 RPM |
bodymap2_breast |
0 .00 RPM |
202 .51 RPM |
bodymap2_colon |
0 .00 RPM |
252 .87 RPM |
bodymap2_heart |
0 .00 RPM |
79 .27 RPM |
bodymap2_kidney |
0 .00 RPM |
100 .20 RPM |
bodymap2_liver |
0 .00 RPM |
31 .71 RPM |
bodymap2_lung |
0 .00 RPM |
162 .04 RPM |
bodymap2_lymph_node |
0 .00 RPM |
172 .28 RPM |
bodymap2_ovary |
0 .00 RPM |
209 .71 RPM |
bodymap2_prostate |
0 .00 RPM |
214 .93 RPM |
bodymap2_skeletal_muscle |
0 .00 RPM |
91 .59 RPM |
bodymap2_testis |
0 .00 RPM |
219 .11 RPM |
bodymap2_thyroid |
0 .00 RPM |
112 .95 RPM |
bodymap2_white_blood_cells |
0 .00 RPM |
223 .63 RPM |
RNA Polymerase II actvity near the 5' end of retro_hsap_4173 was not detected
No EST(s) were mapped for retro_hsap_4173 retrocopy.
No TSS is located nearby retro_hsap_4173 retrocopy 5' end.
retro_hsap_4173 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_hsap_4173 has 0 orthologous retrocopies within eutheria group .
Parental genes homology:
Parental genes homology involve
9 parental genes, and
19 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).