RetrogeneDB ID: | retro_ecab_320 | ||
Retrocopy location | Organism: | Horse (Equus caballus) | |
| Coordinates: | 14:80441767..80442501(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSECAG00000015302 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | DGAT2 | ||
| Ensembl ID: | ENSECAG00000024847 | ||
| Aliases: | None | ||
| Description: | diacylglycerol O-acyltransferase 2 [Source:HGNC Symbol;Acc:16940] |
Retrocopy-Parental alignment summary:
>retro_ecab_320
GAGCTGGTGAAGACGCACAACCTGCTCACCACCAGGAACTACATCTTTGGGTACCACCCCACGGCATCATGGGCCTCAGT
GCCTTCTGCTACTTCAGCACAGAGGCCACGGAAGTGAGCAAGAAGTTCCCTGGCATACGGCCCCACCTGGCCACGCTGGC
CGGCAGCTTCCGGAGGCCAGTGCTGAGGGAGTACATGGTGTCTGGAGGCATCTGCCCTGTGAACCAGGACACAGTAGACT
TGCTTTCAAAGAATGGGAGTGGCAATGCCATCATCCTCGTTGTGGGGGGCGCGGCCGAGTCCCTGAGCTCCATGCCCGGC
AAGAACGCGGTCACCCTGCGCCACCGCAAGGGCTTAGTGAAACTGGCTCTGCGCCATGGAGCCGATCTGGTTCCTTTCTA
CTCCTTCGGGGAGAACGAGGTGTACAAGCAGGTAATCTTTGAGGAGGGCTCCTGGGGCCGCTGGGTCCAGAAGAAGTTCC
AGAGGTACATCGGCTTCGCCCGGTGCATTTTCCATGGCCGAGGCCTCTTCTCCTCTGACACCTGGGGGCTCCTGCCCTAC
CCGAAGCCCATCACCTCCGTCGTGGGTGAGCCCATCACCATCCCCAAGCTGGAGCACCCAACCCAGCAGGACATCGACCT
GTACCACACCATGTACATGGAGGCCCTGGTGAACCCCTTCTACAGGCACAAGACCAAGTCTGGCCTCCCGGGGACTGAGG
TCCTGGAGTGAACT
ORF - retro_ecab_320 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 90.69 % |
| Parental protein coverage: | 80.39 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | QLVKTHNLLTTRNYIFGYHP-HGIMGLGAFCNFSTEATEVSKKFPGIRPYLATLAGNFRMPVLREYLMSG |
| .LVKTHNLLTTRNYIFGYHP.HGIMGL.AFC.FSTEATEVSKKFPGIRP.LATLAG.FR.PVLREY..SG | |
| Retrocopy | ELVKTHNLLTTRNYIFGYHP<HGIMGLSAFCYFSTEATEVSKKFPGIRPHLATLAGSFRRPVLREYMVSG |
| Parental | GICPVNQDTIDYLLSKNGSGNAIIIVVGGAAESLSSMPGKNAVTLRHRKGFVKLALRHGADLVPIYSFGE |
| GICPVNQDT.D.LLSKNGSGNAII.VVGGAAESLSSMPGKNAVTLRHRKG.VKLALRHGADLVP.YSFGE | |
| Retrocopy | GICPVNQDTVD-LLSKNGSGNAIILVVGGAAESLSSMPGKNAVTLRHRKGLVKLALRHGADLVPFYSFGE |
| Parental | NEVYKQVIFEEGSWGRWVQKKFQKYIGFAPCIFHGRGLFSSDTWGLLPYPKPITTVVGEPITIPKLEHPT |
| NEVYKQVIFEEGSWGRWVQKKFQ.YIGFA.CIFHGRGLFSSDTWGLLPYPKPIT.VVGEPITIPKLEHPT | |
| Retrocopy | NEVYKQVIFEEGSWGRWVQKKFQRYIGFARCIFHGRGLFSSDTWGLLPYPKPITSVVGEPITIPKLEHPT |
| Parental | QQDIDLYHAMYMEALVNLFDRHKTKFGLPETEVLEVT |
| QQDIDLYH.MYMEALVN.F.RHKTK.GLP.TEVLE.T | |
| Retrocopy | QQDIDLYHTMYMEALVNPFYRHKTKSGLPGTEVLE*T |
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 | 1 .59 RPM |
| SRP021940_cerebellum | 0 .16 RPM | 13 .04 RPM |
| SRP021940_embryo | 0 .00 RPM | 7 .88 RPM |
| SRP021940_placental_villous | 0 .00 RPM | 0 .67 RPM |
| SRP021940_synovial_membrane | 0 .00 RPM | 2 .00 RPM |
| SRP021940_testis | 0 .13 RPM | 112 .16 RPM |
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_320 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_320 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ecab_320 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Equus caballus | ENSECAG00000024847 | 1 retrocopy |
retro_ecab_320 ,
|
| Myotis lucifugus | ENSMLUG00000017447 | 1 retrocopy |