>retro_mmus_377
ATGTCGGGACCCGTGCCAAGCAGGGCCAGAGTTTACACAGATGTTAACACACACAGACCCCGAGAGTACTGGGATTATGA
ATCACATGTGGTGGAATGGGGGAATCAAGATGACTACCAGCTTGTTCGAAAATTAGGTAGGGGCAAATACAGTGAAGTGT
TTGAAGCCATCAACATCACAAATAATGAAAAAGTTGTTGTTAAAATTCTCAAGCCAGTAAAAAAGAAGAAAATTAAGCGT
GAAATAAAGATTTTGGAGAATTTGAGAGGTGGGCCCAACATCATCACACTTGCAGACATTGTAAAAGACCCTGTGTCACG
AACCCCTGCCTTGGTTTTTGAACATGTAAACAACACAGACTTCAAGCAATTGTACCAGACGTTAACAGACTATGACATTC
GATTTTACATGTATGAAATTCTGAAAGCCCTGGATTATTGTCACAGCATGGGGATTATGCACAGAGATGTGAAACCCCAT
AATGTCATGATTGATCATGAGCACAGAAAGCTTCGGCTAATAGACTGGGGTTTAGCTGAGTTTTACCATCCAGGCCAAGA
GTATAATGTCCGAGTTGCTTCTCGATATTTCAAAGGTCCAGAGCTACTTGTAGATTATCAGATGTACGATTATAGTTTGG
ATATGTGGAGCTTGGGTTGTATGCTGGCCAGTATGATCTTCCGGAAGGAGCCATTTTTCCATGGACATGACAATTATGAT
CAGTTGGTGAGGATAGCCAAGGTTCTGGGAACAGAAGATTTATATGACTATATTGACAAGTACAACATTGAATTAGATCC
ACGTTTCAACGATATCTTGGGCAGACACTCCCGTAAGCGATGGGAACGCTTTGTCCACAGTGAAAACCAGCATCTTGTCA
GCCCTGAGGCCTTGGATTTTCTGGACAAGCTGCTTCGATATGACCACCAGTCACGGCTCACTGCAAGAGAGGCCATGGAG
CACCCTTACTTCTACACTGTTGTGAAGGACCAGGCTCGAATGAGTTCCACTAGCATGGCAGGGGGCAGCACACCTGTCAG
CAGCGCCAATATGATGTCAGGGATTTCTTCAGTGCCAACTCCTTCACCCCTTGGACCTCTGGCAGGCTCACCAGTGATTG
CCGCTGCCAACTCACTTGGGATACCTGTTCCAGCTGCTGCTGGCGCTCAGCAG
ORF - retro_mmus_377 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
100. % |
Parental protein coverage: |
100. % |
Number of stop codons detected: |
0 |
Number of frameshifts detected |
0 |
Retrocopy - Parental Gene Alignment:
Parental | MSGPVPSRARVYTDVNTHRPREYWDYESHVVEWGNQDDYQLVRKLGRGKYSEVFEAINITNNEKVVVKIL |
| MSGPVPSRARVYTDVNTHRPREYWDYESHVVEWGNQDDYQLVRKLGRGKYSEVFEAINITNNEKVVVKIL |
Retrocopy | MSGPVPSRARVYTDVNTHRPREYWDYESHVVEWGNQDDYQLVRKLGRGKYSEVFEAINITNNEKVVVKIL |
|
Parental | KPVKKKKIKREIKILENLRGGPNIITLADIVKDPVSRTPALVFEHVNNTDFKQLYQTLTDYDIRFYMYEI |
| KPVKKKKIKREIKILENLRGGPNIITLADIVKDPVSRTPALVFEHVNNTDFKQLYQTLTDYDIRFYMYEI |
Retrocopy | KPVKKKKIKREIKILENLRGGPNIITLADIVKDPVSRTPALVFEHVNNTDFKQLYQTLTDYDIRFYMYEI |
|
Parental | LKALDYCHSMGIMHRDVKPHNVMIDHEHRKLRLIDWGLAEFYHPGQEYNVRVASRYFKGPELLVDYQMYD |
| LKALDYCHSMGIMHRDVKPHNVMIDHEHRKLRLIDWGLAEFYHPGQEYNVRVASRYFKGPELLVDYQMYD |
Retrocopy | LKALDYCHSMGIMHRDVKPHNVMIDHEHRKLRLIDWGLAEFYHPGQEYNVRVASRYFKGPELLVDYQMYD |
|
Parental | YSLDMWSLGCMLASMIFRKEPFFHGHDNYDQLVRIAKVLGTEDLYDYIDKYNIELDPRFNDILGRHSRKR |
| YSLDMWSLGCMLASMIFRKEPFFHGHDNYDQLVRIAKVLGTEDLYDYIDKYNIELDPRFNDILGRHSRKR |
Retrocopy | YSLDMWSLGCMLASMIFRKEPFFHGHDNYDQLVRIAKVLGTEDLYDYIDKYNIELDPRFNDILGRHSRKR |
|
Parental | WERFVHSENQHLVSPEALDFLDKLLRYDHQSRLTAREAMEHPYFYTVVKDQARMSSTSMAGGSTPVSSAN |
| WERFVHSENQHLVSPEALDFLDKLLRYDHQSRLTAREAMEHPYFYTVVKDQARMSSTSMAGGSTPVSSAN |
Retrocopy | WERFVHSENQHLVSPEALDFLDKLLRYDHQSRLTAREAMEHPYFYTVVKDQARMSSTSMAGGSTPVSSAN |
|
Parental | MMSGISSVPTPSPLGPLAGSPVIAAANSLGIPVPAAAGAQQ |
| MMSGISSVPTPSPLGPLAGSPVIAAANSLGIPVPAAAGAQQ |
Retrocopy | MMSGISSVPTPSPLGPLAGSPVIAAANSLGIPVPAAAGAQQ |
|
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 |
SRP007412_brain |
0 .23 RPM |
57 .75 RPM |
SRP007412_cerebellum |
0 .09 RPM |
55 .71 RPM |
SRP007412_heart |
0 .25 RPM |
64 .19 RPM |
SRP007412_kidney |
0 .21 RPM |
63 .31 RPM |
SRP007412_liver |
0 .22 RPM |
54 .15 RPM |
SRP007412_testis |
0 .09 RPM |
12 .67 RPM |
RNA Polymerase II actvity near the 5' end of retro_mmus_377 was not detected
4 EST(s) were mapped to retro_mmus_377 retrocopy
EST ID |
Start |
End |
Identity |
Match |
Mis-match |
Score |
AA444207 |
156524486 |
156524977 |
99.2 |
487 |
3 |
482 |
CF163713 |
156524267 |
156524754 |
99.8 |
486 |
1 |
485 |
CK335741 |
156524442 |
156524913 |
100 |
471 |
0 |
471 |
DT902631 |
156524299 |
156524454 |
97.5 |
151 |
4 |
147 |
TSS No. |
TSS Name |
TSS expression level (Expr) in TPM range: |
no expression |
0 < Expr ≤ 1 |
1 < Expr ≤ 5 |
5 < Expr ≤ 10 |
Expr > 10 |
TSS #1 |
TSS_70767 | 257 libraries | 478 libraries | 335 libraries | 0 libraries | 2 libraries |
The graphical summary, for retro_mmus_377
TSS expression levels > 0 TPM .
TSS expression levels were studied across 1072 TSS-CAGE libraries, based on FANTOM5 data.
The expression values were visualized using beanplot. If you have any doubts, how to read it, read more in Kampstra P (2008)
![](Rplots/retro_mmus_377.png)
retro_mmus_377 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmus_377 has 0 orthologous retrocopies within eutheria group .
Parental genes homology:
Parental genes homology involve
4 parental genes, and
6 retrocopies.