RetrogeneDB ID: | retro_ecab_913 | ||
Retrocopy location | Organism: | Horse (Equus caballus) | |
| Coordinates: | 6:73359959..73360521(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ZFAND3 | ||
| Ensembl ID: | ENSECAG00000017336 | ||
| Aliases: | None | ||
| Description: | zinc finger, AN1-type domain 3 [Source:HGNC Symbol;Acc:18019] |
Retrocopy-Parental alignment summary:
>retro_ecab_913
GATTTTCAAAAGAAACAACCAGACGATCATTCTGCCCCAAGCACAAGAGCCAAGCAAATTTGTTTTCCGAGGAGACCACC
AGTGACAACAATACTTCGATAACCACGCCAACTTAGTCCCAGCCAGCAGCCTCTTCCGACAGAACTCAATGTGACTTCAC
CCAAGTAAAGAGACGTATGGGCCATGCACAGACACAGCTCATGTCTCGTTAATCACGCCAACCAAAAGATGCTGTGGTAC
AGATTTACAGCCTGAGAATGACGCTTCGCCAGTGAAAGGGCCACCACTACTGCAGAATACTGAACCATCCCAGGAAACCA
GCCGATCTAAACAGAAGAGTCTACGTTGGTGCTCCCAGTGCCAAACCAAACTGGAGCTGGTGCAGCAGGAATTGGGATGG
TGCCGCTGTGGTTACGTGTTGTGTATATTACATCGCCTCCCCAAGCAGCATGACTGCACATTTGACCACAGGGGCCACGG
CCCAGAGGAAGCCATCATGAAAATGGTGAAACTGGACCAGAAAGTGGGGCGCTCCTGCCAGCGCATCGGGGAGGGGTGCT
CC
ORF - retro_ecab_913 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 79.49 % |
| Parental protein coverage: | 93.63 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 4 |
Retrocopy - Parental Gene Alignment:
| Parental | DFQKKQPDDDSAPSTSN-SQSDLFSEETTSDNNNTSITTPT-LSPS-QQPLPTELNVTS-PSKEECGPCT |
| DFQKKQP.DD........SQ..LFSEETTSDNN.TSITTPT.L.P..QQPLPTELNVTS.PSKE..GPCT | |
| Retrocopy | DFQKKQP-DDHSAPSTR<SQANLFSEETTSDNN-TSITTPT<LVPA<QQPLPTELNVTS>PSKETYGPCT |
| Parental | DTAHVSLITPTKRSCGTADSQSENEASPVKRPRLLENTERSEETSRSKQKSRRRCFQCQTKLELVQQELG |
| DTAHVSLITPTKR.CGT.D.Q.EN.ASPVK.P.LL.NTE.S.ETSRSKQKS.R.C.QCQTKLELVQQELG | |
| Retrocopy | DTAHVSLITPTKRCCGT-DLQPENDASPVKGPPLLQNTEPSQETSRSKQKSLRWCSQCQTKLELVQQELG |
| Parental | SCRCGYVFCMLHRLPEQHDCTFDHMGRGREEAIMKMVKLDRKVGRSCQRIGEGCS |
| .CRCGYV.C.LHRLP.QHDCTFDH.G.G.EEAIMKMVKLD.KVGRSCQRIGEGCS | |
| Retrocopy | WCRCGYVLCILHRLPKQHDCTFDHRGHGPEEAIMKMVKLDQKVGRSCQRIGEGCS |
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 | 16 .53 RPM |
| SRP021940_cerebellum | 0 .00 RPM | 30 .17 RPM |
| SRP021940_embryo | 0 .00 RPM | 46 .67 RPM |
| SRP021940_placental_villous | 0 .00 RPM | 30 .50 RPM |
| SRP021940_synovial_membrane | 0 .00 RPM | 33 .27 RPM |
| SRP021940_testis | 0 .00 RPM | 238 .51 RPM |
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_913 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_913 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ecab_913 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Equus caballus | ENSECAG00000017336 | 1 retrocopy |
retro_ecab_913 ,
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