>retro_cpor_1052
AATGAGTGGTGTAGAAAAACGGACGCTCTACACATCCTCCCAGAGGCTCACCACGTGTATTATCATCTCAAGTCAAACCC
TGCGACTGTCCTCTGTCAGTGAAATTGTTATGTTACTGAAAATCAGCAGTATCAATGGCTAGAAAACGTTTTCAGCTCCT
GGTCCAAAGAACATGCAGGTATCTGTTCTCACATGTTAACATGTCACCAACTATAAAACCTCCAAATCTACTGGCAGCTT
GTCTTCTCTTTTTCTGAAAGCCTTGAAAACACAGAACTTCAAAGATCCTGCATGTTGCTCTTGTTAGAACATCTGAATAT
CATATACAACCTTCCTGCATGAGTGCTGAGTTACTGTCAGGTGTGGCAGTTCCCAGCAATCCTGTGCTACACCAACATGA
TGATGCTAGACCTCCTGATGGCAAAGGCGTTTAGGCCCATACTTTCTTCCAGAAGCCTGAAAGGGCTGGCTAAGAACATT
CCCCAGAGCACAGAGATTCTGAAGAAACTGATAACAAATTCAACTCAGAGTAACATACAT
ORF - retro_cpor_1052 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
60.85 % |
Parental protein coverage: |
64.01 % |
Number of stop codons detected: |
2 |
Number of frameshifts detected |
2 |
Retrocopy - Parental Gene Alignment:
Parental | NEWCRTTDTLHMSPSEAHCVFYHLKSTPSVILCQCSCYVAEDQQYQWLDKVFGSCPRKNMQVT--VLTCR |
| NEWCR.TD.LH..P.EAH.V.YHLKS.P...LCQ..CYV.E.QQYQWL..VF.S............LTC. |
Retrocopy | NEWCRKTDALHILP-EAHHVYYHLKSNPATVLCQ*NCYVTENQQYQWLENVFSSWSKEHAGICSHMLTCH |
|
Parental | HV-TDYKTSESTGSLPSPFLKALKTQNFRDPVCCS-LLEQPNIVHDLPAAVLSHCQVWRLPAVLYLCYTD |
| ......K...S..SL...FLKALKTQNF.DP.CCS.LLE..NI...LPA.VLS.CQVW..PA...LCYT. |
Retrocopy | QL>KTSKSTGSLSSL---FLKALKTQNFKDPACCS<LLEHLNIIYNLPA*VLSYCQVWQFPAI--LCYTN |
|
Parental | VMKLDLLTAAAFQPVLASRSLKGLAKNIPQSTEILKRLMTLNEVQSNIY |
| .M.LDLL.A.AF.P.L.SRSLKGLAKNIPQSTEILK.L.T.N..QSNI. |
Retrocopy | MMMLDLLMAKAFRPILSSRSLKGLAKNIPQSTEILKKLIT-NSTQSNIH |
|
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 |
SRP017611_brain |
0 .35 RPM |
15 .47 RPM |
SRP017611_kidney |
0 .42 RPM |
39 .68 RPM |
SRP017611_liver |
0 .04 RPM |
28 .77 RPM |
SRP040447_lung |
0 .10 RPM |
44 .21 RPM |
SRP040447_skeletal_muscle |
0 .03 RPM |
40 .70 RPM |
Cavia porcellus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cpor_1052 retrocopy.
Cavia porcellus was not studied using FANTOM5 data.
retro_cpor_1052 was not experimentally validated.
Retrocopy orthology:
Cavia porcellus 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
2 parental genes, and
2 retrocopies.