>retro_cfam_300
GGAGCTAGTCAATCATCAATTTTGGTGGTGTCTGTCATGGGCAGCAGACTAATAAAGGTCATGATATCAGCAGAAATCCT
GAACGGGAAGGTGGTCTTTGTGCAAATAAGGGAGAGACTGAAGAACCAAGTCACTCAGATGAAGGAGCAAGTTCTGGTTT
TACACCAGGCCTGGCAATTTTACAGGTTAATGACAGAGATGATTCTAATCTTTATATAAATGTGAAGCTGAAAGCTGCTG
AAGAGATTGGGATCAGAGCACACACATTAAATTACCAAGAACAGCCACAGAATCTGAGGTGTTAAAGTATGTTGCATCAT
TGAATGAAGACCTCACTGTCCATGGTTTCATAGTGCAGCTGCCTTTAGATTCGGAGAACCCCATTAACACTGAAGCAGTG
GTCAATGCTGTTGTACCTGAAAAGGATGTGGATAGGTTGACTAGCATCAGTGCTGGAAAACTTGCTAGAGGTGACCTGAA
TGACTGTTTCATCCATCGTACACCTAAAGGATGCTTGGAACTCATCAAAGAGACAGGGGTATAGGTTGCTGGAAGGCACG
CTGTAGTGGTTGGGCTCAGTAAGATAGTTGGTGCTCTGATGCATGACCTGGTTCTGTGGAACCATGCCACAGTGACCACC
TGCCACTCCAAGACTGCCAAACTAGGCAAGGAGGTAAATAAAGGTGACATCCTGGTGGTAGCAACTGGTCAGCCACAAAT
GGTAAAATGGGAGTGGATCTAACCTGCAATAGTCATCGACTGCAGGATCAATTATATTACAGGTGATACAAAACCAAATG
GGAGAAAAGTGGTAGGTGATGTGGCATACAATGAGGCCAAAGAGAGGGCAGGCTTCATCACTCCTGTTCCTGGTAGCATG
GGGCCCATGATGGCGACAATGCTAATGCAGAGCACAGTGGAGAGCAAAGCGTTTCCTGGAGAAATTTAAGCCAGGAAAGT
GGATGATTCAATATAACAACCTTAACCTCAAGACTCCTGTTCCAAGTGACATTGATATATCATGGTCTTGTAAGCCAAAG
CCCATTGGCAGCCTGGCTCAGGAAATTGGTCTGCTCTCTGAAGAGATGGAATTGTACGGTGATACAAAGGCCAAGGTTCT
GCTGTCAGCACTGGAACGCCTGAAGCACCAGTCTGATGGGAAATACGTGGTGGTGACTGGAATCACCCCCAATGCCCCTG
GGAGAAGGGAAAAGCACAGCCACCATTGGGCTGGTGCAGGCCCTTGGCACCCATCTTCATCAGAACGTCTTTGCGTGTGT
ACGACAGCCTTCTCAGGGCCCCACCTTTGGAATAAAAGATGGCATTGCAAGAGGTGGCTACTCACAGGTCATTCCTATGG
AACAGTTTGATCTCTACCTCACTGGTGACATCCATGCCATCGCTGCAGTGAATAACCTTGTCGCTGCAGCCATCGATGCC
CAGATGTTCCACAAACTGATGCAGACAGACAAGGGTCTCTTTAATCATTTGGTACCATCAGTAAATGGAGTGAGAAAGTT
CTCTGATATCCAAATCCGAAGGTTACAACGACTGAGTATTGAAAAAACTGACCCTACCCCACTGACTGATGACCGAGATA
AACAGATTTGCAAGATTGGACATTGATCCAGAAACCATAACTTGGCAAAGAGTATTGGATACCAATGATAGATTC
ORF - retro_cfam_300 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
87.43 % |
Parental protein coverage: |
57.49 % |
Number of stop codons detected: |
2 |
Number of frameshifts detected |
5 |
Retrocopy - Parental Gene Alignment:
Parental | GASRSSVLVVSIVGSGLIKAMAPAEILNGKVVSAQIRERLKNEVTQMKEQV-PGFIPGLAILQVGDRDDS |
| GAS.SS.LVVS..GS.LIK.M..AEILNGKVV..QIRERLKN.VTQMKEQV..GF.PGLAILQV.DRDDS |
Retrocopy | GASQSSILVVSVMGSRLIKVMISAEILNGKVVFVQIRERLKNQVTQMKEQV<SGFTPGLAILQVNDRDDS |
|
Parental | NLYINVKLKAAEEIGIRA-THIKLPKTATESEVLKYVTSLNEDLTVHGFIVQLPLDSENPINTEAVINAI |
| NLYINVKLKAAEEIGIRA.THIKLP.TATESEVLKYV.SLNEDLTVHGFIVQLPLDSENPINTEAV.NA. |
Retrocopy | NLYINVKLKAAEEIGIRA<THIKLPRTATESEVLKYVASLNEDLTVHGFIVQLPLDSENPINTEAVVNAV |
|
Parental | VPEKDVDGLTSISAGKLARGDLKDCFIPCTPKGCLELIKETGVQIAGRHAVVVGRSKIVGAPMHDLLLWN |
| VPEKDVD.LTSISAGKLARGDL.DCFI..TPKGCLELIKETGV..AGRHAVVVG.SKIVGA.MHDL.LWN |
Retrocopy | VPEKDVDRLTSISAGKLARGDLNDCFIHRTPKGCLELIKETGV*VAGRHAVVVGLSKIVGALMHDLVLWN |
|
Parental | HATVTTCHSKTANLSEEVNKGDILVVATGQPEMVKGEWIKPGAIVIDCGINYIPDDTKPNGRKVVGDVAY |
| HATVTTCHSKTA.L..EVNKGDILVVATGQP.MVK.EWI.P.AIVIDC.INYI..DTKPNGRKVVGDVAY |
Retrocopy | HATVTTCHSKTAKLGKEVNKGDILVVATGQPQMVKWEWI*P-AIVIDCRINYITGDTKPNGRKVVGDVAY |
|
Parental | NEAKERAGFITPVPGGVGPMTVAMLMQSTVESAKRF-LEKFKPGKWMIQYNNLNLKTPVPSDIDISRSCK |
| NEAKERAGFITPVPG..GPM...MLMQSTVES.K.F.LEKFKPGKWMIQYNNLNLKTPVPSDIDIS.SCK |
Retrocopy | NEAKERAGFITPVPGSMGPMMATMLMQSTVES-KAF>LEKFKPGKWMIQYNNLNLKTPVPSDIDISWSCK |
|
Parental | PKPIGSLAREIGLLSEEVELYGDTKAKVLLSALERLKHQPDGKYVVVTGITPT-PLGEGKSTTTIGLVQA |
| PKPIGSLA.EIGLLSEE.ELYGDTKAKVLLSALERLKHQ.DGKYVVVTGITP..PLGEGKST.TIGLVQA |
Retrocopy | PKPIGSLAQEIGLLSEEMELYGDTKAKVLLSALERLKHQSDGKYVVVTGITPN>PLGEGKSTATIGLVQA |
|
Parental | LGAHLHQNVFACVRQPSQGPTFGIKGGAAGGGYSQVIPMEEFNLHLTGDIHAITAANNLVAAAIDARMFH |
| LG.HLHQNVFACVRQPSQGPTFGIK.G.A.GGYSQVIPME.F.L.LTGDIHAI.A.NNLVAAAIDA.MFH |
Retrocopy | LGTHLHQNVFACVRQPSQGPTFGIKDGIARGGYSQVIPMEQFDLYLTGDIHAIAAVNNLVAAAIDAQMFH |
|
Parental | ELTQTDKALFNRLVPSVNGVRKFSDIQIRRLQRLGIEKTDPTTLTDD-EINRFARLDIDPETITWQRVLD |
| .L.QTDK.LFN.LVPSVNGVRKFSDIQIRRLQRL.IEKTDPT.LTDD.EINRFARLDIDPETITWQRVLD |
Retrocopy | KLMQTDKGLFNHLVPSVNGVRKFSDIQIRRLQRLSIEKTDPTPLTDD>EINRFARLDIDPETITWQRVLD |
|
Parental | TNDRF |
| TNDRF |
Retrocopy | TNDRF |
|
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 |
SRP012049_cerebellum |
0 .08 RPM |
68 .75 RPM |
SRP017611_brain |
0 .00 RPM |
50 .18 RPM |
SRP017611_kidney |
0 .00 RPM |
285 .68 RPM |
SRP017611_liver |
0 .00 RPM |
267 .43 RPM |
Canis familiaris was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cfam_300 retrocopy.
Canis familiaris was not studied using FANTOM5 data.
retro_cfam_300 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cfam_300 has 0 orthologous retrocopies within eutheria group .
Parental genes homology:
Parental genes homology involve
6 parental genes, and
11 retrocopies.