RetrogeneDB ID: | retro_ecab_574 | ||
Retrocopy location | Organism: | Horse (Equus caballus) | |
| Coordinates: | 21:19260581..19261244(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSECAG00000019846 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_ecab_574
GAGATGAAAAACACAATAGATGAGATAAAGAAAAATCTGGACTCCCTAAACAACAAAACGGAGCATTTGGAAGACCAAAT
TAACAGTTTAGAAGACAATACTATAGAAATGCTTCAGAGGGAGGAGAAGAGAGAGCTAAGACTAAAAAGAAATGAAGAAG
CTCTCAGAGAAATATCTGACTCAATTAGAAAATGCAACATAAGGATTATAGGCATTCCAGAGGGGGAAGAGAAGGAGAAC
GAAGCAGAAAGCTTGTAATAGTGGAGATCTTCCCAAACCTGGGGAAAGAGATGGAAATCCATGTGAAAGAGGCTACCAGA
ACTCCCAACTATGTTAATGTAAAAAGACTACTACAAGGCATATTGTAATAAAGCTGGCAAAAGTCAATGACAAAGAAAAA
ATACTAAGGGCGGTAAGGCAGAAGAAAAGAACTTACAAAAGAACCCCTATCAGGCTTTCAGCAGATTTCTCAGCAGAAAC
CTTACAGGCTAGGAGAGAGTGGAATGATATATTTAAAATCCAGAAAGACAAAAAATTTCAGCCAAGAATACTCCATCCAG
TGAAAATCTCCTTCAGATATGATGGAGAAATAAAAACTTTCCAAGATAAACAAAAGCTCAGGGAGTTCATTGTCACAAGA
CTCCCCTACAAGAAATCCTCAAG
ORF - retro_ecab_574 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 50.88 % |
| Parental protein coverage: | 99.11 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | EVKSAITEKKSSLNGFNSRFKQVEERINLLDDILEEITRAEQKEEKRIRQNENSLRELWDNIKCANIHVI |
| E.K..I.E.K..L...N......E..IN.L.D...E....E.K.E.R...NE..LRE..D.I...NI..I | |
| Retrocopy | EMKNTIDEIKKNLDSLNNKTEHLEDQINSLEDNTIEMLQREEKRELRLKRNEEALREISDSIRKCNIRII |
| Parental | GVPEERQR-GRKLFEEIIAEIFPNLRKETDTQVQEAQRVPNKTSPKR-PTSRHIIIKMSKIKDKERILKA |
| G.PE.....G.......I.EIFPNL.KE....V.EA.R.PN....KR..T.RHI.IK..K..DKE.IL.A | |
| Retrocopy | GIPEGEEK<GERSRKLVIVEIFPNLGKEMEIHVKEATRTPNYVNVKR<TTTRHIVIKLAKVNDKEKILRA |
| Parental | ARERQQVTYKGKPIRLSVDFSAKTLQVRREWHDIFKV-KEKNLQPRILYPARLSFTMEGEIKSFQDKQKL |
| .R.....TYK..PIRLS.DFSA.TLQ.RREW.DIFK..K.K..QPRIL.P...SF...GEIK.FQDKQKL | |
| Retrocopy | VRQKKR-TYKRTPIRLSADFSAETLQARREWNDIFKIQKDKKFQPRILHPVKISFRYDGEIKTFQDKQKL |
| Parental | KEFIT-KKPILQEMLK |
| .EFI...K..LQE.LK | |
| Retrocopy | REFIV<HKTPLQEILK |
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 |
|---|---|---|
| SRP021940_articular_cartilage | 0 .00 RPM | 0 .00 RPM |
| SRP021940_cerebellum | 0 .00 RPM | 0 .00 RPM |
| SRP021940_embryo | 0 .00 RPM | 0 .00 RPM |
| SRP021940_placental_villous | 0 .00 RPM | 0 .00 RPM |
| SRP021940_synovial_membrane | 0 .00 RPM | 0 .00 RPM |
| SRP021940_testis | 0 .00 RPM | 0 .00 RPM |
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_574 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_574 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ecab_574 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 8 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Equus caballus | ENSECAG00000019846 | 8 retrocopies |
retro_ecab_1033, retro_ecab_391, retro_ecab_528, retro_ecab_531, retro_ecab_540, retro_ecab_574 , retro_ecab_615, retro_ecab_918,
|