RetrogeneDB ID: | retro_cpor_1367 | ||
Retrocopy location | Organism: | Guinea Pig (Cavia porcellus) | |
| Coordinates: | scaffold_72:7727059..7728480(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CAP2 | ||
| Ensembl ID: | ENSCPOG00000008839 | ||
| Aliases: | None | ||
| Description: | Adenylyl cyclase-associated protein [Source:UniProtKB/TrEMBL;Acc:H0VD91] |
Retrocopy-Parental alignment summary:
>retro_cpor_1367
ATGGCCGACATGCAAAATCTGGTGGAAAGGTTGGAGAGGGCAGTGGGCCGCCTGGAGGCAGCATCCCGGCCCTCTGACAC
GTGCCGGGGGAATGGGTATGGAGTCGATCCTTCACAGGGAGCAGCTCCATATGTGGAAGCGTTTGACTCACTGCTTGCAG
GTCCTGTGGCAGAGTACTTGAAGATCAGTAAAGAGCTCGGGGGAGATGTACAGAAACATGCAGAGATGGTCCACACAGGT
CTGAAGTTGGAGCGAGCTCTCCTGGCTATCGCTTCTCAGTGCTAGCAGCCAGCCGGTAATAAGCTTTCTGATTTATTGGC
ACCCATCTCAGAGCAGATCCAAGAAGTGATAAACTTTCGGGAGAAAAACCGGGACAGCAAGTTGTTCAATCACCTGTCAG
CTGTCAGTGAAAGCATCCAGGCCTTGGGTTGGGTGGCAATGGCTCCTGCACCTGCCCCTATGTGAAAGAAATGAATGATG
CGGCCATGTTTTATACAAACAGAGTCCTCAAGGAGTACAAAGATGTGGATAAGAAGCACGTGGACTGGGTGAAAGCTTAC
CTGAGTATATGGACAGAACTGCAGGTTTATATTAAGGAGTTCCACACCACTGGCCTGGCCTGGAGCAAAACGGGGCCTGG
GGCAAGAGAACTGAGTGGACTGCCATCTGGACCCTCTGCTGTATCCGGTCCTCCTCCCCCTCTCCCGGGTCCTCCTTCTC
CTCCAGTCGCCACCAGTTCAGGCTCTGATGACTCTGCTTCCCGTTCAGCACTGTTTGCGCAGATTAATCAGGGAGAGAGC
ATTACACATGCCCTGAAGCATGTATATGATGATATGAAGACTCACAAGAACCCCGCCCTGAAGGCTCAGAGTGGTCCAGT
ACGCAGTGGCCCCAAACCATTCTCTGCACCTAAACCCCAAACCAGTTCATCCCCCAGACCAGCCACAAAGAAGGAGCCTG
CTCTACTTGAACTGGAGGGCAAGAAGTGGAGAGTGGAAAACCAGGAGAATATTTCCAACCTGGTGATTGAGAACACAGAG
TTGAAACAGGTGGCTTACATATTCAAGTGTGTCAACACAACATTGCAAATCAAGGGCAAAATTAACTCCATTATAGTAGA
TAACTGTAAGAAACTTGGTCTGGTATTCGATGATGTGGTGGGCATTGTGGAGATAATCAATAGCAGAGATGTCAAAGTTC
AGGTAATGGGTAAAGTGCCAACCATTTCCATTAATAAAACAGATGGCTGCCACGTTTACCTGAGCAAGAATTCCCTGGAT
TGTGAGATAGTCAGTGCCAAATCTTCTGAGATGAACGTCCTCATACCTACAGAAGGTGGCGATTTTAATGAGTTTCCAGT
TCCTGAGCAGTTTAAGACCCTATGGAATGGGCAGAAGTTGGTCATTACAGTGACAGAAATT
ORF - retro_cpor_1367 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 61.54 % |
| Parental protein coverage: | 99.58 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MADLQGLVERLEHAVSRLEQLSAESQQPPGGFGEVNGVNGGVAPSVEAFDKLMNGMVAEFLRNSRILAGD |
| MAD.Q.LVERLE.AV.RLE..S..S....G....V.....G.AP.VEAFD.L..G.VAE.L..S..L.GD | |
| Retrocopy | MADMQNLVERLERAVGRLEAASRPSDTCRGNGYGVDP-SQGAAPYVEAFDSLLAGPVAEYLKISKELGGD |
| Parental | VETHAEMVHGAFQAQRAFLVMASRYQQPQENEVAALLKPISEKIQEIQTFRERNRGSNMFNHLSAVSESI |
| V..HAEMVH......RA.L..AS...QP..N....LL.PISE.IQE...FRE.NR.S..FNHLSAVSESI | |
| Retrocopy | VQKHAEMVHTGLKLERALLAIASQC*QPAGNKLSDLLAPISEQIQEVINFREKNRDSKLFNHLSAVSESI |
| Parental | PALGWIAVSPKPGP-YVKEMNDAATFYTNRVLKDYKHSDLRHVDWVKSYLNIWSELQAYIKEHHTTGLTW |
| .ALGW.A..P.P.P.YVKEMNDAA.FYTNRVLK.YK..D..HVDWVK.YL.IW.ELQ.YIKE.HTTGL.W | |
| Retrocopy | QALGWVAMAPAPAP<YVKEMNDAAMFYTNRVLKEYKDVDKKHVDWVKAYLSIWTELQVYIKEFHTTGLAW |
| Parental | SKTGPVASPASAFSVLSAGPG-LPPPPPPPPPPGPPPLFENEGTKEASSPSRSALFAQLNQGEAITKGLR |
| SKTGP.A...S....L..GP.....PPPP.P.P..PP.....G.....S.SRSALFAQ.NQGE.IT..L. | |
| Retrocopy | SKTGPGARELSG---LPSGPSAVSGPPPPLPGPPSPPVATSSGSDD--SASRSALFAQINQGESITHALK |
| Parental | HVTDDQKTYKNPSLRAQ-GQTRS-PTKSHTPSPTSPKAHSPQT--HAPVLALEGKKWRVEYQEDRNDLVI |
| HV.DD.KT.KNP.L.AQ.G..RS.P.....P.P.......P.T......L.LEGKKWRVE.QE....LVI | |
| Retrocopy | HVYDDMKTHKNPALKAQSGPVRSGPKPFSAPKPQTSSSPRPATKKEPALLELEGKKWRVENQENISNLVI |
| Parental | SETELKQVAYIFKCDRSTLQIKGKINSITIDNCKKFGLVFDNVVGIVEVINSRDIQIQVMGRVPTISVNK |
| ..TELKQVAYIFKC...TLQIKGKINSI..DNCKK.GLVFD.VVGIVE.INSRD...QVMG.VPTIS.NK | |
| Retrocopy | ENTELKQVAYIFKCVNTTLQIKGKINSIIVDNCKKLGLVFDDVVGIVEIINSRDVKVQVMGKVPTISINK |
| Parental | TEGCHIYLSEDALDCAVVSAKSSEMNVLIPQE-GDYREFPVPEQFKTTWDGSKLITEPAEI |
| T.GCH.YLS...LDC..VSAKSSEMNVLIP.E.GD..EFPVPEQFKT.W.G.KL.....EI | |
| Retrocopy | TDGCHVYLSKNSLDCEIVSAKSSEMNVLIPTEGGDFNEFPVPEQFKTLWNGQKLVITVTEI |
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 | 2 .93 RPM | 208 .61 RPM |
| SRP017611_kidney | 3 .14 RPM | 1 .05 RPM |
| SRP017611_liver | 2 .00 RPM | 0 .17 RPM |
| SRP040447_lung | 5 .04 RPM | 3 .98 RPM |
| SRP040447_skeletal_muscle | 1 .06 RPM | 202 .89 RPM |
Cavia porcellus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cpor_1367 retrocopy.
Cavia porcellus was not studied using FANTOM5 data.
retro_cpor_1367 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 5 parental genes, and 5 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Canis familiaris | ENSCAFG00000009977 | 1 retrocopy | |
| Cavia porcellus | ENSCPOG00000008839 | 1 retrocopy |
retro_cpor_1367 ,
|
| Homo sapiens | ENSG00000112186 | 1 retrocopy | |
| Macaca mulatta | ENSMMUG00000001990 | 1 retrocopy | |
| Pan troglodytes | ENSPTRG00000017750 | 1 retrocopy |