RetrogeneDB ID: | retro_ecab_137 | ||
Retrocopy location | Organism: | Horse (Equus caballus) | |
| Coordinates: | 1:90823330..90824002(+) | ||
| 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: | ENSECAG00000009821 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_ecab_137
GAGATGAAAAACACAATGGGTGAGATAAAGCAAGAATACAGATTCCCTGAACAATAGAGCTGAAACCATGGAGGAACGAA
TCACCAAAATTGAGGCTAGAAACAGAGACACACTTCAGATGGAGGAATAGAGAGAAGTAAGGCTAAAATGAAATGAAGAA
AGACTCCGAGAAATATCCGACTCGATTAGGAAATGCACTATAAGAACTATAGGTATTCCAGAGAGTGAAGAGAAGGAGAA
TGGAGCAGAAAGCTTCAATAGCAGAGAACTTCCCAAAACTGGGAAAGAGGATGGAAATCCATGTGGAAGAGGGTACCAGA
TCTCCTAAATACGTCAATGTATACAGACCTACTGAAAGGCATACAGCAGAGAAACTGGCAAAAGTGAATTAGAAATAAAA
AATACTAAGGGCAGCAATGCAGAAGAAAATACCTTACAAAGGAACCCCTATCGGGCTCTCAGTGGATTTCTCTGCAGAAA
CCTTTCAGGCTGGGAGAGACTGGAATGACATATTCAAATCCTTGAAGGAGAAAAACTTTCAGCCAAGGATACTTTATCCA
GTGAAAATATCCTTCAGATATGATGGAGAAATAAAAACTTTCCCAGATAAACAAAAGCTAAGGGAGTTCATAGCCACAAG
ACTACCCTGTGCAAGAAATCCTCAAGAAGGCC
ORF - retro_ecab_137 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 54.87 % |
| Parental protein coverage: | 92.53 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | EMKNTTLEMKS-SLERLNSRVSDTHEQMSEIDERLEEISQAEQKKEKRIRQNENSLRELWDNIKCTNIRF |
| EMKNT..E.K......LN.R.....E....I..R.....Q.E...E.R...NE..LRE..D.I....IR. | |
| Retrocopy | EMKNTMGEIKQ>NTDSLNNRAETMEERITKIEARNRDTLQMEE*REVRLK*NEERLREISDSIRKCTIRT |
| Parental | IGVPEGEERDKEAEN-RVAENFPNLKKETDIHIQEAQRTPKKISPKRATPRHIIIKISKMNDKERIPRAA |
| IG.PE.EE....AE....AENFP.L.K...IH..E..R.PK.....R.T.RH...K..K.N.K..I.RAA | |
| Retrocopy | IGIPESEEKENGAES>SIAENFPKLGKRMEIHVEEGTRSPKYVNVYRPTERHTAEKLAKVN*K*KILRAA |
| Parental | RQKKISYKGTPIRLSVHFSTETLQARRDWNDIFKTLKDKNLQPRILYPAKIFFRYEGEIKSFPDNQKLRD |
| .QKKI.YKGTPI.LSV.FS.ET.QA.RDWNDIFK.LK.KN.QPRILYP.KI.FRY.GEIK.FPD.QKLR. | |
| Retrocopy | MQKKIPYKGTPIGLSVDFSAETFQAGRDWNDIFKSLKEKNFQPRILYPVKISFRYDGEIKTFPDKQKLRE |
| Parental | FVAT-SPPLQEILKKA |
| F.AT...P.QEILKKA | |
| Retrocopy | FIAT>DYPVQEILKKA |
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 .03 RPM | 0 .00 RPM |
| SRP021940_testis | 0 .00 RPM | 0 .06 RPM |
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_137 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_137 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ecab_137 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 7 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Equus caballus | ENSECAG00000009821 | 7 retrocopies |
retro_ecab_137 , retro_ecab_142, retro_ecab_237, retro_ecab_394, retro_ecab_643, retro_ecab_731, retro_ecab_925,
|