>retro_hsap_4794
ATGGATCGAGATTTAGAACAGGCTCTGGATCGCACAGAGAATATCACTGAAATTGCCCAACAGAGACGTCCTAGAAGGAG
ATACTCACCTAGGGCGGGAAAAACTCTGCAGGAAAAACTTTATGACATTTATGTTGAAGAATGTGGAAAAGAGCCTGAGG
ATCCTCAGGAATTGAGAAGCAATGTAAACTTGTTAGAAAAGCTTGTTAGGAGAGAGTCCTTGCCATGTTTACTGGTCAAT
CTATACCCAGGCAATCAGGGGTATTCTGTGATGCTCCAGAGAGAAGATGGGTCCTTTGCAGAGACCATTCGGCTGCCTTA
TGAAGAAAGGGCATTGCTGGACTACTTGGATGCAGAAGAATTACCCCCTGCTTTGGGTGATGTCCTGGATAAAGCTTCGG
TTAACATTTTTCATAGTGGGTGTGTCATAGTAGAAGTTCGTGACTACAGGCAGTCCAGTAATATGCAACCTCCTGGTTAC
CAAAGCAGGCATATTCTTCTACGTCCAACCATGCAGACTTTAGCCCCTGAGGTGAAGACGATGACAAGAGATGGCGAGAA
ATGGAGCCAGGAAGACAAATTTCCTCTTGAGAGTCAACTGATCTTAGCGACAGCTGAACCACTGTGTCTTGATCCTTCTG
TAGCAGTTGCCTGCACTGCAAACAGGCTGCTGTACAACAAGCAAAAGATGAATACCGACCCGATGGAACAGTGCCTCCAG
AGGTATTCGTGGCCCTCTGTAAAGCCACAGCAGGAGCAGTCTGACTGTCCACCTCCTCCTGAGCTGAGAGTGTCGACTTC
TGGCCAAAAAGAAGAAAGAAAAGTAGGTCAGCCTTGTGAGCTGAACATTACTAAAGCGGGAAGTTGTGTAGACACGTGGA
AAGGCAGACCCTGTGATTTGGCCGTGCCTTCAGAAGTGGATGTGGAGAAACTTGCTAAAGGGTATCAGTCCGTCACAGCT
GCTGACCCACAGCTCCCAGTCTGGCCAGCCCAGGAGGTAGAAGACCCTTTCAGACATGCATGGGAAGCTGGCTGTCAGGC
CTGGGACACCAAGCCAAACATCATGCAGTCGTTTAATGATCCGCTTCTCTGTGGTAAAATACGGCCACGTAAAAAAGCCA
GGCAGAAGAGCCAGAAGTCTCCCTGGCAGCCCTTCCCAGATGACCATTCAGCTTGTCTCAGGCCTGGGTCAGAGACTGAT
GCTGGGAGGGCAGTGAGTCAGGCCCAGGAATCGGTGCAGAGCAAAGTCAAAGGTCCAGGCAAGATGTCACACAGCTCCAG
TGGCCCAGCCAGTGTCAGTCAGCTCTCTTCATGGAAAACACCAGAACAGCCTGATCCTGTGTGGGTCCAGTCTTCAGTAT
CCGGGAAGGGAGAGAAACATCCACCTCCCCGCACCCAACTTCCCTCAAGCTCAGGAAAGATTTCCTCAGGTAACAGTTTT
CCCCCACAACAGGCAGGCAGCCCTCTTAAGCGTCCA
ORF - retro_hsap_4794 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
61.54 % |
Parental protein coverage: |
67.39 % |
Number of stop codons detected: |
0 |
Number of frameshifts detected |
0 |
Retrocopy - Parental Gene Alignment:
Parental | MQQALELALDRAEYVIESARQRPPKRKYLSSGRKSVFQKLYDLYIEECEKEPEVKQKLRRNVNLLEKLVM |
| M...LE.ALDR.E...E.A.QR.P.R.Y.....K....KLYD.Y.EEC.KEPE..Q.LR.NVNLLEKLV. |
Retrocopy | MDRDLEQALDRTENITEIAQQRRPRRRYSPRAGKTLQEKLYDIYVEECGKEPEDPQELRSNVNLLEKLVR |
|
Parental | QETLSCLVVNLYPGNEGYSLMLRGKNGSDSETIRLPYEEGELLEYLDAEELPPILVDLLEKSQVNIFHCG |
| .E.L.CL.VNLYPGN.GYS.ML....GS..ETIRLPYEE..LL.YLDAEELPP.L.D.L.K..VNIFH.G |
Retrocopy | RESLPCLLVNLYPGNQGYSVMLQREDGSFAETIRLPYEERALLDYLDAEELPPALGDVLDKASVNIFHSG |
|
Parental | CVIAEIRDYRQSSNMKSPGYQSRHILLRPTMQTLICDVHSITSDNHKWTQEDKLLLESQLILATAEPLCL |
| CVI.E.RDYRQSSNM..PGYQSRHILLRPTMQTL...V...T.D..KW.QEDK..LESQLILATAEPLCL |
Retrocopy | CVIVEVRDYRQSSNMQPPGYQSRHILLRPTMQTLAPEVKTMTRDGEKWSQEDKFPLESQLILATAEPLCL |
|
Parental | DPSIAVTCTANRLLYNKQKMNTRPMKRCFKRYSRSSLNRQQDLSHCPPPPQLRLLDFLQKRKERKAGQHY |
| DPS.AV.CTANRLLYNKQKMNT.PM..C..RYS..S...QQ..S.CPPPP.LR.....QK..ERK.GQ.. |
Retrocopy | DPSVAVACTANRLLYNKQKMNTDPMEQCLQRYSWPSVKPQQEQSDCPPPPELRVSTSGQK-EERKVGQPC |
|
Parental | DLKISKAGNCVDMWKRSPCNLAIPSEVDVEKYAKVEKSIKSDDSQPTVWPAHDVKDDYVFECEAGTQYQK |
| .L.I.KAG.CVD.WK..PC.LA.PSEVDVEK.AK...S....D.Q..VWPA..V.D......EAG.Q... |
Retrocopy | ELNITKAGSCVDTWKGRPCDLAVPSEVDVEKLAKGYQSVTAADPQLPVWPAQEVEDPFRHAWEAGCQAWD |
|
Parental | TKLTILQSLGDPLYYGKIQPCKADEESDSQMSPSHSSTDDHSNWFIIGSKTDAERVVNQYQELVQNEAKC |
| TK..I.QS..DPL..GKI.P.K......SQ.SP.....DDHS.....GS.TDA.R.V.Q.QE.VQ...K. |
Retrocopy | TKPNIMQSFNDPLLCGKIRPRKKARQK-SQKSPWQPFPDDHSACLRPGSETDAGRAVSQAQESVQSKVKG |
|
Parental | PVKMSHSSSGSASLSQVSPGKETDQTETVSVQSSVLGKGVKHRPPPIKLPSSSGNSSSGNYFTPQQTSSF |
| P.KMSHSSSG.AS.SQ.S..K...Q...V.VQSSV.GKG.KH.PP...LPSSSG..SSGN.F.PQQ..S. |
Retrocopy | PGKMSHSSSGPASVSQLSSWKTPEQPDPVWVQSSVSGKGEKHPPPRTQLPSSSGKISSGNSFPPQQAGSP |
|
Parental | LKSP |
| LK.P |
Retrocopy | LKRP |
|
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 |
18 .07 RPM |
bodymap2_adrenal |
0 .00 RPM |
33 .00 RPM |
bodymap2_brain |
0 .00 RPM |
21 .78 RPM |
bodymap2_breast |
0 .00 RPM |
22 .45 RPM |
bodymap2_colon |
0 .02 RPM |
21 .71 RPM |
bodymap2_heart |
0 .00 RPM |
18 .26 RPM |
bodymap2_kidney |
0 .15 RPM |
34 .87 RPM |
bodymap2_liver |
0 .00 RPM |
10 .08 RPM |
bodymap2_lung |
0 .00 RPM |
31 .93 RPM |
bodymap2_lymph_node |
0 .00 RPM |
60 .52 RPM |
bodymap2_ovary |
0 .19 RPM |
48 .40 RPM |
bodymap2_prostate |
0 .05 RPM |
56 .05 RPM |
bodymap2_skeletal_muscle |
0 .00 RPM |
19 .64 RPM |
bodymap2_testis |
0 .75 RPM |
119 .70 RPM |
bodymap2_thyroid |
0 .00 RPM |
37 .87 RPM |
bodymap2_white_blood_cells |
0 .00 RPM |
62 .27 RPM |
RNA Polymerase II actvity near the 5' end of retro_hsap_4794 was not detected
No EST(s) were mapped for retro_hsap_4794 retrocopy.
No TSS is located nearby retro_hsap_4794 retrocopy 5' end.
retro_hsap_4794 was not experimentally validated.
Retrocopy orthology:
Retrocopy
retro_hsap_4794 has 4 orthologous retrocopies within
eutheria group
.
Parental genes homology:
Parental genes homology involve
9 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 .05 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).