>retro_cjac_1709
GAAGATCTTAGCAAAGCAATGTCTCAAGATGGCACTTCTCAGTTCCAAGAAGTCATTCGGCAAGAGCTAGATTTATCTAT
GAAGAAGGAACTAGAAAACATACTCACCACAGCATCCTCACATGAGTTTGAGCACACTAGAAAAGACCTGGATGGATTTT
GGAAGCTATTTCATTGATTTTTGCAAGAAAAGGGGCCTTCTGTGGATTGGGGAAAAATTCAGAGACCTCCAGAAGATTCT
ATTCAACCCTATGAAAAGATAAAGGCCAGGGGCTTGCCTGATATATATCTTCTGTGTTGAACAAACTAGTGGTGGTGAAA
CTCAGTGGTGGTTTGGGAACCAGCATGGGCTGCAAAGGCCCTAAAAGTCTTATTGGTGTGAGGAATGAGAATACCTTTCT
GGATCTGACTGTTCAGCAAATCGAACATTTGAATAAAACCTACAATACAGATGTTCTCCTTGTTTTAATGAACTATTTTA
ACACAGATGAAGATACCAAAAAAATACTACAGAAGTACAGTCATTGTTGTGTGAAAATCTACACTTTTAATAAAAGCAGG
TACCCGAGGATTAATAAGGAATCTTTACTTCCTGTAGCAAAGAATGTGTCTTACTCAGGGGAAAATACAGAAGCTTGGTA
CCCTCCAGGTCATGGTGATATTTACGCCAGTTTCTACAACTCTGGTTAGCTTGATACCTTTATAGGAGAAGGCAAAGAGT
ATATTTTTGTGTCTAACTTAGATAATCTCGGTGCCACAGTGGATCTGTATATTCTTAATCATCTAATGAACCCACCCAAT
GGAAAATGCTGTGAATTTGTCATGGAAGTCACAAATAAAACACGTGCAGATGTAAAGGGTGGGACACTCACTCAATATGA
AGGCAAACTGAGACTGGTGGAAATTGCTCAAGTGCCAAAAGCACATGTTGATGAGTTCAAGTCTGTGTCAAAGTTCAAAA
TATTTAACATAAACAACCTATGGATTTCTCCTGCAGCAGTTAAAAGACTGCAGGAGCAGAATGCCATTGACGTGGAAATC
ATTGTGAATGCAAAGACTTTGGATGGAGGCCTGAATGTCATTCAGTTAGAAACTGCAGTAGGGGCTGCCATCGAACGTTT
TGAGAATTCTCTAGGTATTAATGTGCCAAGGAGCCATTTTCTGCCTGTCAAAACCACATCAGATCTCTTGCTGGTGATGT
CAAACCTCTATAGCCTTAATGCAGGATCTCTGACAATGAGTGATAAGCGGGAATTTCCTACAATGCCCTTGGTTAAATTA
GGCAGTTCTTTTACAAAGTTTCAAGATTATCTAAGAAGATTTGAAAGTATACCAGATATTCTTGAATTGGATCACCTCAC
AGTTTCAGGAGATGTGACATTTGGAAAGAATGTTTCATTAAAGGGAGGGAACTGTTATCATTATTGCAAATCATGGTGGC
AGAATTGACATCCCACCTGGAGCAGTATTCGAGAACCAGATTGTATCTGGGAACCTTCACATCTTGGACCAC
ORF - retro_cjac_1709 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
92.09 % |
Parental protein coverage: |
99.02 % |
Number of stop codons detected: |
2 |
Number of frameshifts detected |
2 |
Retrocopy - Parental Gene Alignment:
Parental | QDLSKAMSQDGASQFQEVIRQELELSVKKELEKILTTASSHEFEHTKKDLDGFRKLFHRFLQEKGPSVDW |
| .DLSKAMSQDG.SQFQEVIRQEL.LS.KKELE.ILTTASSHEFEHT.KDLDGF.KLFH.FLQEKGPSVDW |
Retrocopy | EDLSKAMSQDGTSQFQEVIRQELDLSMKKELENILTTASSHEFEHTRKDLDGFWKLFH*FLQEKGPSVDW |
|
Parental | GKIQRPPEDSIQPYEKIKARGLPD-NISSVLNKLVVVKLNGGLGTSMGCKGPKSLIGVRNENTFLDLTVQ |
| GKIQRPPEDSIQPYEKIKARGLPD..ISSVLNKLVVVKL.GGLGTSMGCKGPKSLIGVRNENTFLDLTVQ |
Retrocopy | GKIQRPPEDSIQPYEKIKARGLPD<YISSVLNKLVVVKLSGGLGTSMGCKGPKSLIGVRNENTFLDLTVQ |
|
Parental | QIEHLNKTYNTDVPLVLMNSFNTDEDTKKILQKYNHCRVKIYTFNQSRYPRINKESLLPVAKDVSYSGEN |
| QIEHLNKTYNTDV.LVLMN.FNTDEDTKKILQKY.HC.VKIYTFN.SRYPRINKESLLPVAK.VSYSGEN |
Retrocopy | QIEHLNKTYNTDVLLVLMNYFNTDEDTKKILQKYSHCCVKIYTFNKSRYPRINKESLLPVAKNVSYSGEN |
|
Parental | TEAWYPPGHGDIYASFYNSGLLDTFIGEGKEYIFVSNIDNLGATVDLYILNHLMNPPNGKRCEFVMEVTN |
| TEAWYPPGHGDIYASFYNSG.LDTFIGEGKEYIFVSN.DNLGATVDLYILNHLMNPPNGK.CEFVMEVTN |
Retrocopy | TEAWYPPGHGDIYASFYNSG*LDTFIGEGKEYIFVSNLDNLGATVDLYILNHLMNPPNGKCCEFVMEVTN |
|
Parental | KTRADVKGGTLTQYEGKLRLVEIAQVPKAHVDEFKSVSKFKIFNTNNLWISLGAVKRLQEQNAIDMEIIV |
| KTRADVKGGTLTQYEGKLRLVEIAQVPKAHVDEFKSVSKFKIFN.NNLWIS..AVKRLQEQNAID.EIIV |
Retrocopy | KTRADVKGGTLTQYEGKLRLVEIAQVPKAHVDEFKSVSKFKIFNINNLWISPAAVKRLQEQNAIDVEIIV |
|
Parental | NAKTLDGGLNVIQLETAVGAAIKSFENSLGINVPRSRFLPVKTTSDLLLVMSNLYSLNAGSLTMSEKREF |
| NAKTLDGGLNVIQLETAVGAAI..FENSLGINVPRS.FLPVKTTSDLLLVMSNLYSLNAGSLTMS.KREF |
Retrocopy | NAKTLDGGLNVIQLETAVGAAIERFENSLGINVPRSHFLPVKTTSDLLLVMSNLYSLNAGSLTMSDKREF |
|
Parental | PTVPLVKLGSSFTKVQDYLRRFESIPDMLELDHLTVSGDVTFGKNVSLKG-TVIII-ANHGDRIDIPPGA |
| PT.PLVKLGSSFTK.QDYLRRFESIPD.LELDHLTVSGDVTFGKNVSLKG....II.ANHG.RIDIPPGA |
Retrocopy | PTMPLVKLGSSFTKFQDYLRRFESIPDILELDHLTVSGDVTFGKNVSLKG>GTVIIIANHGGRIDIPPGA |
|
Parental | VLENKIVSGNLRILDH |
| V.EN.IVSGNL.ILDH |
Retrocopy | VFENQIVSGNLHILDH |
|
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 |
SRP051959_colon |
1 .51 RPM |
57 .09 RPM |
SRP051959_heart |
1 .26 RPM |
85 .37 RPM |
SRP051959_kidney |
1 .35 RPM |
36 .54 RPM |
SRP051959_liver |
1 .49 RPM |
394 .68 RPM |
SRP051959_lung |
1 .97 RPM |
36 .49 RPM |
SRP051959_lymph_node |
2 .63 RPM |
32 .01 RPM |
SRP051959_skeletal_muscle |
1 .48 RPM |
347 .75 RPM |
SRP051959_spleen |
2 .75 RPM |
36 .81 RPM |
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_1709 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_1709 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cjac_1709 has 0 orthologous retrocopies within eutheria group .
Parental genes homology:
Parental genes homology involve
5 parental genes, and
5 retrocopies.