RetrogeneDB ID: | retro_mmus_2239 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 3:38438963..38439795(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Nudt22 | ||
| Ensembl ID: | ENSMUSG00000037349 | ||
| Aliases: | Nudt22, 0610006K04Rik, AI851793, AW545547 | ||
| Description: | nudix (nucleoside diphosphate linked moiety X)-type motif 22 [Source:MGI Symbol;Acc:MGI:1915573] |
Retrocopy-Parental alignment summary:
>retro_mmus_2239
ATGGACCCCGAGTTGTCCCTGCTGCTGCTGTGCCCTTTCTAGGGACTGTCCCAGGAACAGGTAGCAGCAGAGCTGAGCCC
AGCTCATGATCGTTGTCCATTGCCTGGAGGAGACAAGACCATCACTGTCATCTGGGAGACCCGGCTACAGGCCCAACCTT
GGATCTTTGATGCTCTCAGCTTCTGCCTTCACTCAGCCACACTGGTCTCCAGCTTACCTGAGCCACAGCTGCTCCCGCAT
CTGGGTCTAACTTCCTAGCAGGACTTCCCGGGCACCAACTGGTCCAGCTCAGCTTCCCGGCTGTGACAGCAGGGAGCTGC
AGATTAGGGTGACAAGCAAGCCTATCTGGCAGACCAGCTGGGGGTGGGTGCCACATTGGTCAGGGCTGATGACTTCCTTG
TCTTCCTGCGCTGCTCTCAGCAGGTAGCAGAAGCACCTGGACTGGGGGATGTGCCCGGTGGGCACCCTGAACCTCAAGTC
CTGTGCTCTGGTGGGATCCCCCAGCCACAAGGACCTCCCTGGGGAGCTGGTGGTCCGAAAGCTCTTCTCCAGTGTCCTAC
AGGAGATCTGTGATGAGGTGAACCTTCCATTGCACACCTTGAACCAGCCTCTGTCATTGGGTATCGCTTGCGATGAGAGC
AGCATGGGCAGAGCCAGTGCAGAGTTCTATGTCCAGTGCAGCCTGATTTCAGAGGTCAGGAGTTGTTACCTGAGTGGGGG
ACCTGAGGCCCACCAGTCTACAGGAATCGTCTTTGTGGAGACACAGAGGGTACAGAGACTGCAGAAAACAAAGATGTGGG
CACCACTCTGCCCCTCAGCCAAAGGCTCCATC
ORF - retro_mmus_2239 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 84.59 % |
| Parental protein coverage: | 90.26 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MDPEVSLLLLCPLGGLSQEQVAVELSPAHDRRPLPGGDKAITAIWETRQQAQPWIFDAPKFRLHSATLVS |
| MDPE.SLLLLCP..GLSQEQVA.ELSPAHDR.PLPGGDK.IT.IWETR.QAQPWIFDA..F.LHSATLVS | |
| Retrocopy | MDPELSLLLLCPF*GLSQEQVAAELSPAHDRCPLPGGDKTITVIWETRLQAQPWIFDALSFCLHSATLVS |
| Parental | SSPEPQLLLHLGLTSYRDFLGTNWSSSASWLRQQGAADWGDKQAYLADPLGVGAALVTADDFLVFLRRSQ |
| S.PEPQLL.HLGLTS..DF.GTNWSSSAS.L.QQGAAD.GDKQAYLAD.LGVGA.LV.ADDFLVFLR.SQ | |
| Retrocopy | SLPEPQLLPHLGLTS*QDFPGTNWSSSASRL*QQGAAD*GDKQAYLADQLGVGATLVRADDFLVFLRCSQ |
| Parental | QVAEAPGLVDVPGGHPEPQALCSGGIPR-HKDLPGLLVVRELFSSVLQEICDEVNLPLHTLSQPLLLGIA |
| QVAEAPGL.DVPGGHPEPQ.LCSGGIP..HKDLPG.LVVR.LFSSVLQEICDEVNLPLHTL.QPL.LGIA | |
| Retrocopy | QVAEAPGLGDVPGGHPEPQVLCSGGIPQ>HKDLPGELVVRKLFSSVLQEICDEVNLPLHTLNQPLSLGIA |
| Parental | CNETSAGRASAEFYVQCSLTSEEVRSYYLSGGPEAHESTGIIFVETQRVQRLQETEMWAQLCPSAKGAI |
| C.E.S.GRASAEFYVQCSL.S.EVRS.YLSGGPEAH.STGI.FVETQRVQRLQ.T.MWA.LCPSAKG.I | |
| Retrocopy | CDESSMGRASAEFYVQCSLIS-EVRSCYLSGGPEAHQSTGIVFVETQRVQRLQKTKMWAPLCPSAKGSI |
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 | 3 .18 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 10 .12 RPM |
| SRP007412_heart | 0 .00 RPM | 11 .27 RPM |
| SRP007412_kidney | 0 .00 RPM | 9 .66 RPM |
| SRP007412_liver | 0 .00 RPM | 4 .34 RPM |
| SRP007412_testis | 0 .00 RPM | 1 .60 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_2239 was not detected
No EST(s) were mapped for retro_mmus_2239 retrocopy.
No TSS is located nearby retro_mmus_2239 retrocopy 5' end.
retro_mmus_2239 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmus_2239 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Mus musculus | ENSMUSG00000037349 | 1 retrocopy |
retro_mmus_2239 ,
|