RetrogeneDB ID: | retro_cpor_94 | ||
Retrocopy location | Organism: | Guinea Pig (Cavia porcellus) | |
| Coordinates: | scaffold_26:22982845..22983355(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSCPOG00000004667 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CNBP | ||
| Ensembl ID: | ENSCPOG00000012816 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_cpor_94
ATGAGCGGTAAAGAATGCTTCAAGTGTGGACGCAATGGTCACTGGGCCCGGGAATGCCCTAAGGGAGGAGCTCGCCAAAG
AGGATTTAGAAGCAGTGACAGCGGTCCACAGTGCAGTTCTGCCAGCCAGTCTGACATCTGTTATCGCTGTGGTGCAGCTG
GTCACTATGCCAAGAATTGTGACCTCCAGGACATCTGCTACAGCTGCGGGAAAAGTGGCCACATCGCCAAAGACTGTCCT
GAGCCTAAACAACAAAAAGAACAATGCTGTTACACCTGCAGTAGACCAGGCCACCTGGCTCGAGACTGTGACCAACGAAA
AGTGCAGAAGTGCTACACTTGCGGTGAATCGGGGCACATCCAAAAAGACTGTGCACAAGTCAGGTGCTACCGGTGTGGTG
AGACCGGCCATATGGCCATGAGCTGCAACAAGGCAAGCGAAGTCAACTGCTACCGCTGTGGAGAGGCTGGACATATAGCC
CGGGAATGCACCGTGGAGGCAACAGCTTAG
ORF - retro_cpor_94 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 69.39 % |
| Parental protein coverage: | 83.05 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | SRGRGGFTSDRGFQFVSSSLPDICYRCGESGHLAKDCDLQEDACYNCGRGGHIAKDCKEPKREREQCCYN |
| .R.RG...SD.G.Q..S.S..DICYRCG..GH.AK.CDLQ.D.CY.CG..GHIAKDC.EPK...EQCCY. | |
| Retrocopy | ARQRGFRSSDSGPQCSSASQSDICYRCGAAGHYAKNCDLQ-DICYSCGKSGHIAKDCPEPKQQKEQCCYT |
| Parental | CGKPGHLARDCDHADEQKCYSCGEFGHIQKDCTKVKCYRCGETGHVAINCSKTSEVNCYRCGESGHLARE |
| C..PGHLARDCD....QKCY.CGE.GHIQKDC..V.CYRCGETGH.A..C.K.SEVNCYRCGE.GH.ARE | |
| Retrocopy | CSRPGHLARDCDQRKVQKCYTCGESGHIQKDCAQVRCYRCGETGHMAMSCNKASEVNCYRCGEAGHIARE |
| Parental | CTIEATA |
| CT.EATA | |
| Retrocopy | CTVEATA |
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 .00 RPM | 56 .71 RPM |
| SRP017611_kidney | 0 .00 RPM | 135 .05 RPM |
| SRP017611_liver | 0 .00 RPM | 93 .32 RPM |
| SRP040447_lung | 0 .00 RPM | 137 .73 RPM |
| SRP040447_skeletal_muscle | 0 .00 RPM | 234 .44 RPM |
Cavia porcellus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cpor_94 retrocopy.
Cavia porcellus was not studied using FANTOM5 data.
retro_cpor_94 was not experimentally validated.