RetrogeneDB ID: | retro_btau_195 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 2:100306470..100307061(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSBTAG00000005239 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | BT.48960 | ||
| Ensembl ID: | ENSBTAG00000014331 | ||
| Aliases: | None | ||
| Description: | ubiquitin-like protein 4A [Source:RefSeq peptide;Acc:NP_001029386] |
Retrocopy-Parental alignment summary:
>retro_btau_195
ATGCAGCTGACGGTGAAGGCACTCCAGGGCCGCGAGTGCAGCCTTCAGGTGTCGGAGGACGAGCTGGTGTCCACGCTGAA
ACATCTGGTCTCCGAGAAGCTGAACATCCCGGTCCGCCAGCAGCGGCTGCTGTTCAAGGGCAAGGCCCTGGCAGATGGGA
AAAGACTCTCCGATTACAGCATCGGGCCGAATTCCAAGCTCAACCTAGTGGTCAAACCTCTGGAGAAGGTGTTGCTGGAA
GAAAGCACCGCGCGGAAAACGGCCGAGGCCCCGGCCCCACAGCCCGCCGCCTGGACGCTCATTTCCAGAGTTCTGGCCCA
GCACTTCAGCGCCGCCGATGCCAGCAGAGTCCTGGATCAACTCCAGAGGGATTATGAGCGGTCCCTGAGCCGCCTGACGC
TGGATGACATTGAACGCTTGGCTGGCCGCTTCCTGCACGCCGAAGCGACTGAAGCTATGGAGAAGGGGTTCTCCATGAAG
GTCTGCTTCATCCCAGGCCTCTACCTCAGGATCAAAAGATGGCTGCCTGCAGCTTCCACCAAACCCCTCGGTCACAGCCA
GCATGGAGCACCTTCCCGTCCTCTAGCATAG
ORF - retro_btau_195 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 97.45 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MQLTVKALQGRECSLQVSEDELVSTLKHLVSEKLNIPVRQQRLLFKGKALADGKRLSDYSIGPNSKLNLV |
| MQLTVKALQGRECSLQVSEDELVSTLKHLVSEKLNIPVRQQRLLFKGKALADGKRLSDYSIGPNSKLNLV | |
| Retrocopy | MQLTVKALQGRECSLQVSEDELVSTLKHLVSEKLNIPVRQQRLLFKGKALADGKRLSDYSIGPNSKLNLV |
| Parental | VKPLEKVLLEESTARKTAEAPAPQPAAWTLISRVLAQHFSAADASRVLDQLQRDYERSLSRLTLDDIERL |
| VKPLEKVLLEESTARKTAEAPAPQPAAWTLISRVLAQHFSAADASRVLDQLQRDYERSLSRLTLDDIERL | |
| Retrocopy | VKPLEKVLLEESTARKTAEAPAPQPAAWTLISRVLAQHFSAADASRVLDQLQRDYERSLSRLTLDDIERL |
| Parental | AGRFLHPEATEAMEKGFS-NVCFIPGLYLRIRRWLPAASTEPLGHSQHGAPSRPLA |
| AGRFLH.EATEAMEKGFS..VCFIPGLYLRI.RWLPAAST.PLGHSQHGAPSRPLA | |
| Retrocopy | AGRFLHAEATEAMEKGFSMKVCFIPGLYLRIKRWLPAASTKPLGHSQHGAPSRPLA |
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 | 2 .96 RPM |
| ERP005899_muscle | 0 .05 RPM | 19 .27 RPM |
| SRP017611_brain | 0 .05 RPM | 15 .67 RPM |
| SRP017611_kidney | 0 .06 RPM | 12 .80 RPM |
| SRP017611_liver | 0 .00 RPM | 6 .80 RPM |
| SRP030211_testis | 4 .30 RPM | 12 .21 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_195 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_195 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_195 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 5 parental genes, and 5 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Anolis carolinensis | ENSACAG00000005040 | 1 retrocopy | |
| Bos taurus | ENSBTAG00000014331 | 1 retrocopy |
retro_btau_195 ,
|
| Callithrix jacchus | ENSCJAG00000016805 | 1 retrocopy | |
| Ochotona princeps | ENSOPRG00000012645 | 1 retrocopy | |
| Rattus norvegicus | ENSRNOG00000037250 | 1 retrocopy |