RetrogeneDB ID: | retro_mmul_1735 | ||
Retrocopy location | Organism: | Rhesus macaque (Macaca mulatta) | |
| Coordinates: | 3:165409814..165410432(-) | ||
| Located in intron of: | ENSMMUG00000015432 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CD2BP2 | ||
| Ensembl ID: | ENSMMUG00000021844 | ||
| Aliases: | None | ||
| Description: | CD2 antigen cytoplasmic tail-binding protein 2 [Source:RefSeq peptide;Acc:NP_001247625] |
Retrocopy-Parental alignment summary:
>retro_mmul_1735
CAGGCCTCAGACTTGGAAGAGGAAGACAGCTTGGGCCAGACCCCAGTGACTGCCCAAGCCCTCTTGGAGGGACTTTTGGA
GCTCCTACTGTCTAGAGAGACAGTGGTTGGGGCACTGAGGCATCTGGGGGCCCAAGAAGAGGCAAAGGGAGCAGCAAGGG
GCCCAGGTGACCAAGTTCCCCGCAGCACCTGGATCGGCTCTCCGAGTTGGCTGACCAGATGGTGGCCCGGGGCAACCTTG
GCAGGCACCAGGAAATGAGGGAACAGTTGGCCATGCGGCTGAAGGGTTTGGAGTGCCAGGCCCTAGGGACCCCACAATCC
CACATCCCCACGCTCCCTGGACATGTTCACTGAGGAAGTGGTGGAGAGGGAACTGGAGACCCCAACCCCTACCCAGAAAG
AAGAAGCAGAGTTGCCACGAGATGGTCTGGTGGATGTGATGTGGGAATATAAGTGGGTGAACCTGGGGGATGCCAAGCTG
CATGGGCCCTTCACCAGCGCCCAGATGCAGACCTGGATGAGTGAAGGCTACTTTCCTGATGGTGTTTATTGCTGGAAGCT
GGACCCCCTTGGTGGTCAGTTCTACAACTCTAAATGCATTGACTTTGACCTCTACACC
ORF - retro_mmul_1735 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 80.77 % |
| Parental protein coverage: | 60.41 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | QASDSEEEDSLGQTPMSAQALLEGLLELLLPRETVAGALRRLGARGG-GKGSSKGPGRPSSPQRLDRLSG |
| QASD.EEEDSLGQTP..AQALLEGLLELLL.RETV.GALR.LGA....GKGSSKGP..PSSPQ.LDRLS. | |
| Retrocopy | QASDLEEEDSLGQTPVTAQALLEGLLELLLSRETVVGALRHLGAQEE<GKGSSKGPR*PSSPQHLDRLSE |
| Parental | LADQMVARGNLGVYQETRERLAMRLKGLGCQTVG-PHNPTPPPSLDMFAEEVAEEELETPTPTQRGEAES |
| LADQMVARGNLG..QE.RE.LAMRLKGL.CQ..G.PHNPT.P.SLDMF.EEV.E.ELETPTPTQ..EAE. | |
| Retrocopy | LADQMVARGNLGRHQEMREQLAMRLKGLECQALG>PHNPTSPRSLDMFTEEVVERELETPTPTQKEEAEL |
| Parental | PGDGLVDVMWEYKWENTGDAELYGPFTSAQMQTWVSEGYFPDGVYCRKLDPPGGQFYNSKRIDFELYT |
| P.DGLVDVMWEYKW.N.GDA.L.GPFTSAQMQTW.SEGYFPDGVYC.KLDP.GGQFYNSK.IDF.LYT | |
| Retrocopy | PRDGLVDVMWEYKWVNLGDAKLHGPFTSAQMQTWMSEGYFPDGVYCWKLDPLGGQFYNSKCIDFDLYT |
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 |
|---|---|---|
| SRP007412_brain | 0 .00 RPM | 18 .82 RPM |
| SRP007412_brain_prefrontal_cortex | 0 .00 RPM | 35 .46 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 18 .08 RPM |
| SRP007412_heart | 0 .00 RPM | 24 .91 RPM |
| SRP007412_kidney | 0 .00 RPM | 28 .52 RPM |
| SRP007412_liver | 0 .04 RPM | 18 .13 RPM |
| SRP007412_testis | 0 .08 RPM | 16 .17 RPM |
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_1735 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_1735 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmul_1735 has 4 orthologous retrocopies within eutheria group .| Species | RetrogeneDB ID |
|---|---|
| Homo sapiens | retro_hsap_3900 |
| Pan troglodytes | retro_ptro_2653 |
| Gorilla gorilla | retro_ggor_2627 |
| Pongo abelii | retro_pabe_3179 |
Parental genes homology:
Parental genes homology involve 6 parental genes, and 6 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Homo sapiens | ENSG00000169217 | 1 retrocopy | |
| Gorilla gorilla | ENSGGOG00000014271 | 1 retrocopy | |
| Macaca mulatta | ENSMMUG00000021844 | 1 retrocopy |
retro_mmul_1735 ,
|
| Nomascus leucogenys | ENSNLEG00000015767 | 1 retrocopy | |
| Pongo abelii | ENSPPYG00000007267 | 1 retrocopy | |
| Pan troglodytes | ENSPTRG00000007995 | 1 retrocopy |