RetrogeneDB ID: | retro_btau_678 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 17:41354271..41354981(-) | ||
| Located in intron of: | ENSBTAG00000010306 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | MINA | ||
| Ensembl ID: | ENSBTAG00000015546 | ||
| Aliases: | None | ||
| Description: | MYC-induced nuclear antigen [Source:UniProtKB/Swiss-Prot;Acc:Q5EA24] |
Retrocopy-Parental alignment summary:
>retro_btau_678
GGGGCGCTAGCACAGGAGTTCACGCTGAAGCCGGCAGATCTGAGCTTTCGCAGAGGGACCATCCAGCAGGCGGACACTCC
GGAGGGGCTGGCCAACTCCACGCACGTGACCATCCACACCTCCGGAGCAGTTCGTGGGGAGATTTCCTTTTGGACACCAT
TTTGGGGCTCGTGTTTGATACCACAAAGGCAGACGTTGAGCTCCGGGCTGGCATCCGCAGGTGGCTGCTCCCGCAGATGG
AAACCACAGCTGTTGCAACAAGAAGATAAGGTGGCTTTCTGAGGATGCTTGCAGACCAGCTAGAGGGCATCAAAGAACTG
CCTTCAGCAGACATGAGAAAGGATGTTGCCATGAATGGATTCTCTCCTTACTATATGGGAAGTTCGGCAGAGCTTTTCAA
CACCAGGTGGACAGTTACCAGGGCTGGACAACACAGTGAGACTGCAATTTAGAGACCACATTGTCCTCACCGTAGGACCC
GATCAAGATCCATCTGATGAACCTGGAGAAAAGATGGTTTACTCTATCATTCCTGAAAAAATAGGTGAGAGACACACATG
ATGGGAAGTGAGGAAACAGTCTCATGGACTTCGCTTTCCTTTATCACATATGGTTGCACTGAAGCAAATTTGGAACAGTT
CAGCTAGTTCTGTCAAGGTTAGCTTACTACAGATGAGGAAAAGCAGAAGCAAAACCTAGTATTATCCTTG
ORF - retro_btau_678 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 72.02 % |
| Parental protein coverage: | 51.08 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 5 |
Retrocopy - Parental Gene Alignment:
| Parental | GRPTHEFTLKPGDLLYFPRGTIHQADTPEGLAHSTHVTIST-YQSSSWGDFLLDTISGLVFDTAKADVAL |
| G....EFTLKP.DL..F.RGTI.QADTPEGLA.STHVTI.T...SSSWGDFLLDTI.GLVFDT.KADV.L | |
| Retrocopy | GALAQEFTLKPADLS-FRRGTIQQADTPEGLANSTHVTIHT<LRSSSWGDFLLDTILGLVFDTTKADVEL |
| Parental | RAGIPRQLLLQAESIAVATRL-SGFLRMLADRLEGTKELPSADMKKDFAMNRLPPYYMGDRAKLV-APGG |
| RAGI.R.LL.Q.E..AVATR...GFLRMLAD.LEG.KELPSADM.KD.AMN...PYYMG..A.L...PGG | |
| Retrocopy | RAGIRRWLLPQMETTAVATRR*GGFLRMLADQLEGIKELPSADMRKDVAMNGFSPYYMGSSAELF>TPGG |
| Parental | QLPGLDSTVRLQFRDHVVLTVGPYQDPSDETRGEMVY-VYHSLRNRRDTHMMGNE-TESYGLRFPLSYMD |
| QLPGLD.TVRLQFRDH.VLTVGP.QDPSDE....MVY..YHS..NR..THMMG.E...S.GLRFPLS.M. | |
| Retrocopy | QLPGLDNTVRLQFRDHIVLTVGPDQDPSDEPGEKMVY<LYHS*KNR*ETHMMGSE>KQSHGLRFPLSHMV |
| Parental | ALKQIWNSSAISVKDLKL-TTDE-EKQNLVLSL |
| ALKQIWNSSA.SVK...L.T..E..KQNLVLSL | |
| Retrocopy | ALKQIWNSSASSVKVSLL<TDEEKQKQNLVLSL |
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 | 11 .39 RPM |
| ERP005899_muscle | 0 .00 RPM | 9 .98 RPM |
| SRP017611_brain | 0 .00 RPM | 13 .57 RPM |
| SRP017611_kidney | 0 .00 RPM | 18 .20 RPM |
| SRP017611_liver | 0 .00 RPM | 11 .33 RPM |
| SRP030211_testis | 0 .05 RPM | 100 .76 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_678 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_678 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_678 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 | ENSBTAG00000015546 | 1 retrocopy |
retro_btau_678 ,
|
| Echinops telfairi | ENSETEG00000010104 | 1 retrocopy | |
| Mus musculus | ENSMUSG00000022724 | 1 retrocopy | |
| Ochotona princeps | ENSOPRG00000015755 | 1 retrocopy |