>retro_sscr_215
ACAAACACCTTGAATGACCTTGGCCTTCACTGGAGGATGTGAATGACCCTGAATGTGGTGGCAGATGACTTTATCTTTGA
TGGGTCCTCTCTTCTTGCTCATATGCATGGATATGCATATGTAAGATGCTCTAGTTAGGGGAAAAAAAGTATGATAGTTC
CCATTCAGTTTATACATCAGCTGAGCAATGGAGTGGAAGACTGATAATCATAAATCATCTTCCTATTACGCTTCCTCTTA
TAGCATCCTAGGTTGAGTTCTCACTGGGAAGCCTCCACTTCGATATTCCCATTCAGGGTGCCATGTACTCCCCACAGTCA
AATCGGGTTTTCAGAGAAAGTGGCTGACAGGGTGAAAGGAATTCTTGCAGATCCCAACTTGTACTTCCTAGCTTTGACCT
TCTTTGTCACTGCATTTCATCTTTGTTTTGATTTCCTAACATTTAAAAAATGGCAACAGTTTCTGCAAGAAAAATAAGAG
C
ORF - retro_sscr_215 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
54.6 % |
Parental protein coverage: |
64.49 % |
Number of stop codons detected: |
3 |
Number of frameshifts detected |
3 |
Retrocopy - Parental Gene Alignment:
Parental | SNALDEPVSHWRPRLTLNVMVDDFVFDGAALPADVH--RYMKMVQLGKTVHYLPILFIDQLSNRVKD-LM |
| .N.L.....HWR...TLNV..DDF.FDG..L.A..H...Y......GK.....PI.FI.QLSN.V.D.L. |
Retrocopy | TNTLNDLGLHWRM*MTLNVVADDFIFDGSSLLAHMHGYAYVRCSS*GKKSMIVPIQFIHQLSNGVED<LI |
|
Parental | VINRSTAELPLTVSYDKISLGRLRFWIHMQDAVYSLQ-QLGFSEKDADEVKGIFVDTNLYFLALTFFVAA |
| .IN.....LPL..S....SLG.L.F.I..Q.A.YS.Q.Q.GFSEK.AD.VKGI..D.NLYFLALTFFV.A |
Retrocopy | IINHLPITLPLIAS*VEFSLGSLHFDIPIQGAMYSPQ>QIGFSEKVADRVKGILADPNLYFLALTFFVTA |
|
Parental | FHLLFDFLAF-KNDISFWKKKKT |
| FHL.FDFL.F.KN..SF.KK.K. |
Retrocopy | FHLCFDFLTF>KNGNSFCKKNKS |
|
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 |
SRP014902_placenta |
0 .00 RPM |
85 .48 RPM |
SRP014902_testis |
0 .00 RPM |
34 .65 RPM |
SRP018288_heart |
0 .00 RPM |
9 .67 RPM |
SRP018288_kidney |
0 .00 RPM |
41 .57 RPM |
SRP018288_liver |
0 .00 RPM |
26 .23 RPM |
SRP018288_lung |
0 .00 RPM |
34 .42 RPM |
SRP018856_adipose |
0 .00 RPM |
23 .35 RPM |
SRP035408_brain |
0 .00 RPM |
14 .32 RPM |
SRP035408_liver |
0 .00 RPM |
20 .58 RPM |
Sus scrofa was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_sscr_215 retrocopy.
Sus scrofa was not studied using FANTOM5 data.
retro_sscr_215 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_sscr_215 has 0 orthologous retrocopies within eutheria group .
Parental genes homology:
Parental genes homology involve
3 parental genes, and
3 retrocopies.