RetrogeneDB ID: | retro_btau_927 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 21:14561921..14562432(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSBTAG00000022990 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | KCTD2 | ||
| Ensembl ID: | ENSBTAG00000021231 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_btau_927
CCCCTGCGACTGTGGGCCGCCGCGCAGCCGCTGGAGCCCGGGTCCCGGGCCGCCGGGTCAGGGGGCGGTGGTCGGCCCGC
AGAGTCCGGCTGAACGGGGCAGCACCTTACTCCATGACCACCAGACAGACCCTAGGCCTGGAGCCCAGGTCTTTTCTCTG
CCGCCTCTGCTGCCAGGAGGATCCGGGGCTGGACACAGACAAGGACGAGCCGGGGGCCTATCTGACTGACAGGGACCCTA
TTTACTTGGGTCCACTCCTAAACTACCCCCGTCAAGGGAAGCTCATCTTTAGGAAGGAGTTGGCAGAAAAGGCGGCTGGA
GGAAGTGGAGTTTTACAACATTGCATCTCTCCAGCGACTGGTTTCAAGGAGGTGATATCAACAAGAAAAACTGAGCTTCC
CAGGGCCCGGCGAAGCACGTGTACAGAGTCCTGCAACGCTAAGAGGAGGCGCTCAGGCAGATGGTGTCCACTATGTCCGA
CGGCTGGAGATTCCAACAGCTAATCAGCATG
ORF - retro_btau_927 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 62.29 % |
| Parental protein coverage: | 65.53 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | PARLSXAAAQPLEPGPGPPERTGGGG-AARWVRLNVGGTYFVTTRQTLGREPKSFLCRLCCQEDPELDSD |
| P.RL..AAAQPLEPG.......GGGG..AR.VRLN....Y..TTRQTLG.EP.SFLCRLCCQEDP.LD.D | |
| Retrocopy | PLRL-WAAAQPLEPG-SRAAGSGGGG<SARRVRLNGAAPYSMTTRQTLGLEPRSFLCRLCCQEDPGLDTD |
| Parental | KDETGAYLIDRDPTYFGPILNYLRHGKLIITKELAEEGVLEEAEFYNIASLVRLVKERIR-DNENRTSQG |
| KDE.GAYL.DRDP.Y.GP.LNY.R.GKLI..KELAE.............S.....KE.I.....N..SQG | |
| Retrocopy | KDEPGAYLTDRDPIYLGPLLNYPRQGKLIFRKELAEKAAGGSGVLQHCISPATGFKEVIS<NKKN*ASQG |
| Parental | PVKHVYRVLQCQEEELTQMVSTMSDGWKFEQLISI |
| P.KHVYRVLQ..EE.L.QMVSTMSDGW.F.QLIS. | |
| Retrocopy | PAKHVYRVLQR*EEALRQMVSTMSDGWRFQQLISM |
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 .60 RPM |
| ERP005899_muscle | 0 .00 RPM | 23 .23 RPM |
| SRP017611_brain | 0 .00 RPM | 30 .70 RPM |
| SRP017611_kidney | 0 .00 RPM | 17 .96 RPM |
| SRP017611_liver | 0 .00 RPM | 6 .57 RPM |
| SRP030211_testis | 0 .13 RPM | 41 .69 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_927 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_927 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_927 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 | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000021231 | 1 retrocopy |
retro_btau_927 ,
|
| Callithrix jacchus | ENSCJAG00000014605 | 1 retrocopy | |
| Echinops telfairi | ENSETEG00000013965 | 1 retrocopy | |
| Pongo abelii | ENSPPYG00000008616 | 1 retrocopy | |
| Pan troglodytes | ENSPTRG00000009629 | 1 retrocopy |