>retro_lcha_117
ATGAAGGCTTTACTTTTCACGGTCTGCGTTTTGCACGCTTTGGCCGTCGAAGTGTCCACGCTGGTTTGCAAGAGCTGCTT
CTCTATCCAGTCCTCGTGTCCTACAATGAAGGAAGTCACTTGCTTACCTAAGGAAAACGTTTGCTACTCTACATCCGTGG
AGATGAAAAATACATTATTAGCCAAGACATTTAAGTCCTTCTCGAAGGGATGTGCAGCCAGTAACGTCTGCAGGGCCACC
CAGCTCACCAACATTACCGGCATCCAAACAGTCACTAGCGTTCAATGCTGCAATAAAGACCTCTGCAATGTTGGAGAATT
CTCTGTCCCGGCTCTGAAGCAAGCAGCTAATACTTTGCACTGTTACTCTTGTGCTAGCAGAACTGCTCAATATTGTTCTG
CCAAAAGTAAACTAAAGTGTACCGGGGACCAGGCCATGTGCTTCAAACTGACTGAGGAATTTGATACGGAGGGCAAAAGA
CAACCTTACATACTAAAGGGGTGCGTTTCTCAGCGAGCCTGCGGCGAGGGATTTTTATTTACCACTCCCGGCGGAATGAG
GCTGCTTAACAAAGTTTACTGTTGTAAAAGCAAGCTGTGCAACAGCGGCGTGCGTCTTCCATACAGCTGGATCCTGCTGG
TGGTGGCAAGCGTCTTCCTACTCATCAAGCCA
ORF - retro_lcha_117 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
50.22 % |
Parental protein coverage: |
99.11 % |
Number of stop codons detected: |
0 |
Number of frameshifts detected |
0 |
Retrocopy - Parental Gene Alignment:
Parental | MKALFFTIYILCTLSVEVSTLVCKSCFAIKKECDEMQNVNCTAKENVCYDMSVEMKN-MKGEEFQSVMKG |
| MKAL.FT...L..L.VEVSTLVCKSCF.I...C..M..V.C..KENVCY..SVEMKN......F.S..KG |
Retrocopy | MKALLFTVCVLHALAVEVSTLVCKSCFSIQSSCPTMKEVTCLPKENVCYSTSVEMKNTLLAKTFKSFSKG |
|
Parental | CGMGNICKPAQSIIIHGVQTITAVKCCKTNLCNSASFLVSVPKSTFNGMKCYSCTDKSSKVCQSVKTTVE |
| C...N.C...Q...I.G.QT.T.V.CC...LCN...F.V...K...N...CYSC.......C.S.K.... |
Retrocopy | CAASNVCRATQLTNITGIQTVTSVQCCNKDLCNVGEFSVPALKQAANTLHCYSCASRTAQYC-SAKSKLK |
|
Parental | CSGDQTVCFKLTEEIDKDGNKKPYITKGCASKGVC-KGFLFSTSKGITVIDNVHCCEGSLCNNGDCFSYN |
| C.GDQ..CFKLTEE.D..G...PYI.KGC.S...C..GFLF.T..G......V.CC...LCN.G....Y. |
Retrocopy | CTGDQAMCFKLTEEFDTEGKRQPYILKGCVSQRACGEGFLFTTPGGMRLLNKVYCCKSKLCNSGVRLPYS |
|
Parental | WILLAVASI-LLLKP |
| WILL.VAS..LL.KP |
Retrocopy | WILLVVASVFLLIKP |
|
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 |
DRP000627_gill |
0 .00 RPM |
0 .00 RPM |
DRP000627_kidney |
0 .00 RPM |
0 .00 RPM |
DRP000627_pectoral_fin |
0 .12 RPM |
0 .00 RPM |
DRP000627_pelvic_fin |
0 .00 RPM |
0 .00 RPM |
DRP000627_pharynx |
0 .02 RPM |
0 .00 RPM |
DRP000627_tail_muscle |
0 .02 RPM |
0 .02 RPM |
Latimeria chalumnae was not studied using ChIP-Seq data.
Latimeria chalumnae was not studied using EST data.
Latimeria chalumnae was not studied using FANTOM5 data.
retro_lcha_117 was not experimentally validated.
Retrocopy orthology:
Latimeria chalumnae does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to
help section.
Parental genes homology:
Parental genes homology involve
1 parental gene, and
1 retrocopy.