RetrogeneDB ID: | retro_btau_1031 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 23:32970343..32970805(-) | ||
| Located in intron of: | ENSBTAG00000021902 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | BT.62681 | ||
| Ensembl ID: | ENSBTAG00000036297 | ||
| Aliases: | None | ||
| Description: | putative ribosome-binding factor A, mitochondrial [Source:RefSeq peptide;Acc:NP_001106721] |
Retrocopy-Parental alignment summary:
>retro_btau_1031
AGGAAGTTTTGGTATGAAGGTCCTTCCTTGGGCTCTCACTTGACCCACAAGCCATCCCAGTTGGAGTTCTTGATGAAGAG
CACCACCAGGAGAACCCGAAGGAAGACCGGGGCACCTGAAGGCGCTGAACATTCTCCTCTACAAAGCGCTCACAGGCTTG
CTATGCACCCCGGAAGTGAGCCAGGACCTGTGCGACCCGAACGCGGAGCTCTGCAAGGTCTCTCTGGCTTCAGGCTTCTC
TGCCTGCCGCGTCTTCTGGAGGGCGACCCTCTCTGAGGCCCAGAACGCACACCGGAGGCTGTCCTGCAGAGGAGTGCTGC
GCACATGGGGCATCTTCTGATGTCCCAGCAGACCCCGAGGAACGTGCCGCCCAGAGTGTGTGTTCAGGACAAAAAATACG
TAGCTATGGTGGAGATTGATCGGCTACTGGCAATTGCTGATTTTGGACCCCGGGATGACAAG
ORF - retro_btau_1031 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 81.01 % |
| Parental protein coverage: | 53.08 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | KKFWYEGPSLGSHLTHKSSQLEFLTKSTSRRTR-KEDQV-RLRALNGLLYKALTDLLCTPEVSQELCDLN |
| .KFWYEGPSLGSHLTHK.SQLEFL.KST.RRTR.KED....L.ALN.LLYKALT.LLCTPEVSQ.LCD.N | |
| Retrocopy | RKFWYEGPSLGSHLTHKPSQLEFLMKSTTRRTR<KEDRG<HLKALNILLYKALTGLLCTPEVSQDLCDPN |
| Parental | VELCKVSLTSDFSACRVFWRATLSEAQNAH-TEAVLRRSAAHMRHLLMSQQTLRNVPPIVFVQDKKYAAV |
| .ELCKVSL.S.FSACRVFWRATLSEAQNAH..EAVL.RSAAHM.HLLMSQQT.RNVPP.V.VQDKKY.A. | |
| Retrocopy | AELCKVSLASGFSACRVFWRATLSEAQNAH<PEAVLQRSAAHMGHLLMSQQTPRNVPPRVCVQDKKYVAM |
| Parental | MEVDRLLAIADFGPRGEK |
| .E.DRLLAIADFGPR..K | |
| Retrocopy | VEIDRLLAIADFGPRDDK |
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 |
|---|---|---|
| ERP005899_liver | 0 .00 RPM | 1 .87 RPM |
| ERP005899_muscle | 0 .00 RPM | 13 .46 RPM |
| SRP017611_brain | 0 .00 RPM | 5 .76 RPM |
| SRP017611_kidney | 0 .12 RPM | 15 .94 RPM |
| SRP017611_liver | 0 .08 RPM | 7 .02 RPM |
| SRP030211_testis | 0 .00 RPM | 7 .56 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_1031 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_1031 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_1031 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 4 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000036297 | 1 retrocopy |
retro_btau_1031 ,
|
| Cavia porcellus | ENSCPOG00000000170 | 1 retrocopy | |
| Equus caballus | ENSECAG00000008292 | 1 retrocopy | |
| Pan troglodytes | ENSPTRG00000010137 | 1 retrocopy |