>retro_hsap_2369
TTGACTTCAGAATTTGTAAACCCTGACATGGTACCTTTTGTTTTGCCCAGTGTTCTACTGATCGTTGAGGAATGCACCAA
AGAAGAATATGTCACATTAATTCCACCTGAACTTGGCCCTGTGTTTAAGCAGCAGGAGCCAATCCAGATTTTGTTAATTT
TCCTACAAAAAATGGATTTGCTACTAACCAAAACCCCTCCCAATGAGATAAAGAACAGTGTTCTACCCATGGTTTACAGA
GCACTAGAAGCTCCTTCCATTCAATACCAGGAGCTCTGTCTAAACATCATTCCAACCTTTGCAAATCTTATAGACTACCC
ATCATGAAACATACTTTGATACCAAGAATTAAAAATGCCTGTCTACAAATGTCTTCCCTTGCTGTTCCTGTAAATTCATT
AGTGTGCTTAGGAAAGATTTTGGAATACTTGGATAAGTGGTTGGTACTTGATGGTATCCTACCCTTCTTACAACAAATTC
CATCCAAAGAGTCTGCAGTCCTCATGGGTATTTTAGGCATTTACAAATGTACTTTTACTCATAAGTTGGGAATCACCAAA
GAGCAGCTGACTGGAAAAGTATTGCCTCATCTTATTCCCCTGAGTATTGAAAACAATCTTAATCAGTTCAATTCTTTCAT
TTCCATCATAAAAGAGATGCTGAATAGGTTGGAGTCTGAACATAAGACTAAGCTGGAGCAACTTCATATAATGCAAGAAC
AACAGAAATCTTTGGACATAGGAAATCAAATGAATGTTTCTGAGGAGACAAAAGTTACAAATATTGGGAATCAGCAAATT
GACAAGGTTTTTAGCCACATTGGAGCAGACCTTCTGACTGGCAGTGATTCCGAAAATAAAGAGGATGGGTTTCAGAATAA
ACATAAAAGAGCATCACTTACACTTGAAGAAAAACAAAAATTAGCAAGAGAACAAGAGCAGGCATAGAAGTTGAAAGGCC
AGCAGCCTCTTAAACCCCAAGTGTACACACCTATTGCTGCTGTTAAACAGACTAAGGACTTGACAGACACATTGATGGAT
AATATGTCATCTTTGACTAGCCTTTCTGTTAGTACCCCTAAACCTTCTGCTTCAAGTACGTTCACTTCTGTTCCTTCCAT
GGGCATTGACATGATGTTTTCTACACCAGTTGATAATACAAAGAGAAATTTGACAAATGGCCTAAATGTCAATATGGGCT
TTCAGACTTCAGGATTCAACATGCCCGTTACTACAAACCAGAACTTCTACAGTAGTCCAAGCACAGTTGGAGTGACCAAA
ATGACTCTGGAACACCTCCCACTTTGCCAAACTTCAGTGCTTTGAATGTTCCTCCTGCTGGTGCGAAGCCAACCCAACAA
AGACCCACAGATATGTCTGCCCTTAATAATCTCTTTGGCCCTCAGAAACCCAAAGTTAGCATGAACCAATTATCACAACA
GAAACCAAATCAGTGGCTTAATCAGTTTGTACCTCCTCAAGTTTCTCCAGCTACGGGCAGTTCAGTAATGGGAACACAGA
TGAACATGATAGGACAATCTGCCTTTGGTATGCAGGGTAATCCTTTCTTCAACCCACAGAACTTTGCATAGCCACCAACT
GCTATGACCAATAGCAGTTCAGCTAGCAATGATTTTAAAGATCTTTTTGGG
ORF - retro_hsap_2369 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
91.73 % |
Parental protein coverage: |
59.63 % |
Number of stop codons detected: |
2 |
Number of frameshifts detected |
2 |
Retrocopy - Parental Gene Alignment:
Parental | LTSEFVNPDMVPFVLPNVLLIAEECTKEEYVKLILPELGPVFKQQEPIQILLIFLQKMDLLLTKTPPDEI |
| LTSEFVNPDMVPFVLP.VLLI.EECTKEEYV.LI.PELGPVFKQQEPIQILLIFLQKMDLLLTKTPP.EI |
Retrocopy | LTSEFVNPDMVPFVLPSVLLIVEECTKEEYVTLIPPELGPVFKQQEPIQILLIFLQKMDLLLTKTPPNEI |
|
Parental | KNSVLPMVYRALEAPSIQIQELCLNIIPTFANLIDYPS-MKNALIPRIKNACLQTSSLAVRVNSLVCLGK |
| KNSVLPMVYRALEAPSIQ.QELCLNIIPTFANLIDYPS.MK..LIPRIKNACLQ.SSLAV.VNSLVCLGK |
Retrocopy | KNSVLPMVYRALEAPSIQYQELCLNIIPTFANLIDYPS<MKHTLIPRIKNACLQMSSLAVPVNSLVCLGK |
|
Parental | ILEYLDKWFVLDDILPFLQQIPSKEPAVLMGILGIYKCTFTHKKLGITKEQLAGKVLPHLIPLSIENNLN |
| ILEYLDKW.VLD.ILPFLQQIPSKE.AVLMGILGIYKCTFTHK.LGITKEQL.GKVLPHLIPLSIENNLN |
Retrocopy | ILEYLDKWLVLDGILPFLQQIPSKESAVLMGILGIYKCTFTHK-LGITKEQLTGKVLPHLIPLSIENNLN |
|
Parental | LNQFNSFISVIKEMLNRLESEHKTKLEQLHIMQEQQKSLDIGNQMNVSEEMKVTNIGNQQIDKVFNNIGA |
| ..QFNSFIS.IKEMLNRLESEHKTKLEQLHIMQEQQKSLDIGNQMNVSEE.KVTNIGNQQIDKVF..IGA |
Retrocopy | --QFNSFISIIKEMLNRLESEHKTKLEQLHIMQEQQKSLDIGNQMNVSEETKVTNIGNQQIDKVFSHIGA |
|
Parental | DLLTGSESENKEDGLQNKHKRASLTLEEKQKLAKEQEQAQKLKSQQPLKPQVHTPVATVKQTKDLTDTLM |
| DLLTGS.SENKEDG.QNKHKRASLTLEEKQKLA.EQEQA.KLK.QQPLKPQV.TP.A.VKQTKDLTDTLM |
Retrocopy | DLLTGSDSENKEDGFQNKHKRASLTLEEKQKLAREQEQA*KLKGQQPLKPQVYTPIAAVKQTKDLTDTLM |
|
Parental | DNMSSLTSLSVSTPKSSASSTFTSVPSMGIGMMFSTPTDNTKRNLTNGLNANMGFQTSGFNMPVNTNQNF |
| DNMSSLTSLSVSTPK.SASSTFTSVPSMGI.MMFSTP.DNTKRNLTNGLN.NMGFQTSGFNMPV.TNQNF |
Retrocopy | DNMSSLTSLSVSTPKPSASSTFTSVPSMGIDMMFSTPVDNTKRNLTNGLNVNMGFQTSGFNMPVTTNQNF |
|
Parental | YSSPSTVGVTKMTL-GTPPTLPNFNALSVPPAGAKQTQQRPTDMSALNNLFGPQKPKVSMNQLSQQKPNQ |
| YSSPSTVGVTKMTL.GTPPTLPNF.AL.VPPAGAK.TQQRPTDMSALNNLFGPQKPKVSMNQLSQQKPNQ |
Retrocopy | YSSPSTVGVTKMTL<GTPPTLPNFSALNVPPAGAKPTQQRPTDMSALNNLFGPQKPKVSMNQLSQQKPNQ |
|
Parental | WLNQFVPPQGSPTMGSSVMGTQMNVIGQSAFGMQGNPFFNPQNFAQPPTTMTNSSSASNDLKDLFG |
| WLNQFVPPQ.SP..GSSVMGTQMN.IGQSAFGMQGNPFFNPQNFA.PPT.MTNSSSASND.KDLFG |
Retrocopy | WLNQFVPPQVSPATGSSVMGTQMNMIGQSAFGMQGNPFFNPQNFA*PPTAMTNSSSASNDFKDLFG |
|
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 .58 RPM |
53 .15 RPM |
bodymap2_adrenal |
0 .68 RPM |
49 .92 RPM |
bodymap2_brain |
0 .42 RPM |
42 .40 RPM |
bodymap2_breast |
0 .41 RPM |
62 .59 RPM |
bodymap2_colon |
0 .00 RPM |
70 .40 RPM |
bodymap2_heart |
0 .24 RPM |
53 .57 RPM |
bodymap2_kidney |
0 .12 RPM |
102 .06 RPM |
bodymap2_liver |
0 .04 RPM |
54 .10 RPM |
bodymap2_lung |
0 .09 RPM |
74 .70 RPM |
bodymap2_lymph_node |
0 .00 RPM |
60 .14 RPM |
bodymap2_ovary |
0 .19 RPM |
84 .01 RPM |
bodymap2_prostate |
0 .07 RPM |
77 .84 RPM |
bodymap2_skeletal_muscle |
0 .02 RPM |
45 .16 RPM |
bodymap2_testis |
0 .11 RPM |
71 .53 RPM |
bodymap2_thyroid |
0 .17 RPM |
75 .08 RPM |
bodymap2_white_blood_cells |
0 .06 RPM |
102 .55 RPM |
RNA Polymerase II actvity near the 5' end of retro_hsap_2369 was not detected
No EST(s) were mapped for retro_hsap_2369 retrocopy.
No TSS is located nearby retro_hsap_2369 retrocopy 5' end.
retro_hsap_2369 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_hsap_2369 has 0 orthologous retrocopies within eutheria group .
Parental genes homology:
Parental genes homology involve
5 parental genes, and
5 retrocopies.
Expression level across human populations :
Library |
Retrogene expression |
CEU_NA11831 |
0 .09 RPM |
CEU_NA11843 |
0 .06 RPM |
CEU_NA11930 |
0 .03 RPM |
CEU_NA12004 |
0 .04 RPM |
CEU_NA12400 |
0 .04 RPM |
CEU_NA12751 |
0 .05 RPM |
CEU_NA12760 |
0 .00 RPM |
CEU_NA12827 |
0 .19 RPM |
CEU_NA12872 |
0 .03 RPM |
CEU_NA12873 |
0 .03 RPM |
FIN_HG00183 |
0 .08 RPM |
FIN_HG00277 |
0 .00 RPM |
FIN_HG00315 |
0 .00 RPM |
FIN_HG00321 |
0 .09 RPM |
FIN_HG00328 |
0 .05 RPM |
FIN_HG00338 |
0 .02 RPM |
FIN_HG00349 |
0 .03 RPM |
FIN_HG00375 |
0 .05 RPM |
FIN_HG00377 |
0 .08 RPM |
FIN_HG00378 |
0 .02 RPM |
GBR_HG00099 |
0 .03 RPM |
GBR_HG00111 |
0 .02 RPM |
GBR_HG00114 |
0 .13 RPM |
GBR_HG00119 |
0 .02 RPM |
GBR_HG00131 |
0 .09 RPM |
GBR_HG00133 |
0 .02 RPM |
GBR_HG00134 |
0 .02 RPM |
GBR_HG00137 |
0 .05 RPM |
GBR_HG00142 |
0 .06 RPM |
GBR_HG00143 |
0 .03 RPM |
TSI_NA20512 |
0 .06 RPM |
TSI_NA20513 |
0 .15 RPM |
TSI_NA20518 |
0 .00 RPM |
TSI_NA20532 |
0 .14 RPM |
TSI_NA20538 |
0 .00 RPM |
TSI_NA20756 |
0 .03 RPM |
TSI_NA20765 |
0 .12 RPM |
TSI_NA20771 |
0 .03 RPM |
TSI_NA20786 |
0 .03 RPM |
TSI_NA20798 |
0 .09 RPM |
YRI_NA18870 |
0 .03 RPM |
YRI_NA18907 |
0 .00 RPM |
YRI_NA18916 |
0 .04 RPM |
YRI_NA19093 |
0 .03 RPM |
YRI_NA19099 |
0 .08 RPM |
YRI_NA19114 |
0 .03 RPM |
YRI_NA19118 |
0 .02 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).