RetrogeneDB ID: | retro_cjac_4164 | ||
Retrocopy location | Organism: | Marmoset (Callithrix jacchus) | |
| Coordinates: | X:52045034..52046001(-) | ||
| Located in intron of: | ENSCJAG00000000221 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | G3BP2 | ||
| Ensembl ID: | ENSCJAG00000019897 | ||
| Aliases: | None | ||
| Description: | GTPase activating protein (SH3 domain) binding protein 2 [Source:HGNC Symbol;Acc:30291] |
Retrocopy-Parental alignment summary:
>retro_cjac_4164
GCTAACAGTGGAAAACTGGAAAGGAAGTTTATGCAAACCTTTGTTCTGGCTCCTGAAGGATCTGTTCCAAATAAATTTCA
TGTTCACAAATGATATGTTTCGTTATGAAGAGGAAGTGTTCAGTGATTCTGAGCCTGAACTTGATGAAGAAGATGAAGTA
GAAGAGGAACAAGAAGAAAGACAACCATCTCCTGAACCTGTGCAAGAAAATGCAAACAGTGGTTACAATGAAGCTCACCC
TGTGACTAATGGCATAGAGGAGCCTTTGGAAGAATCCTCTCATGAACCTGAACCTGTGCCAGAATCTGAAACAAAGACTG
AAGAGCTGAAACCACAAGTGGAGGAGAAGAATTTAGAAGAATTAGAGAAGTCTACTCCTCCTCCTCTGGCAGAAACTGTT
TCTCTGCCACAAGAACCACCAAAGCCAAGAGTTGAAGCTAAAACAGAAGTTCAATCCCAGCCACCTCCTGTATGTGAAGA
GTGACCTAGACAACGACCTGCTTTCCCCGCTAGAGGACCGAGACCAGGCAGAGGAGATACGGAACTGAGTGACTATGACA
ACCGTAGAATAATTCACTATCCAGATAGTCATCAACTTTTTCTTGGTAACTTGCTACATGATATTGATGAAAATGAACTG
GAATAATTCTTCATGAGTTTTGGGAACGTTGTGGAACTTCATATCAATACCAAGGGTGTTGGGGAAAAGCTTCCAAATTT
TGGTTTTGTGGTTTTTGATGACTCTGAACCAGTTCAGAGAATCTTAATTGTGAAACTGATTATGTTTTGAGGGGAAGTAA
TTTAAATGTGAAAAAGAAAAAAACAAGAGCTACAAGAGAGCAAGAAACCAGAGGTGGTAGTGATGATTGGCAGGGTTATT
AGGCGCAATGATCAAGGTCCTGGTGGTCCACGTGGAATTGTGGGTGGCAGAATGATGCATGAGCATAATGGAAGAGGACC
TCCTCCA
ORF - retro_cjac_4164 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 83.54 % |
| Parental protein coverage: | 72.38 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | SNSGQPERKFMQTFVLAPEGSVPNKFYVH-NDMFRYEDEVFGDSEPELDEESEDEVEEEQEERQPSPEPV |
| .NSG..ERKFMQTFVLAPEGSVPNKF.VH.NDMFRYE.EVF.DSEPELDEE..DEVEEEQEERQPSPEPV | |
| Retrocopy | ANSGKLERKFMQTFVLAPEGSVPNKFHVH>NDMFRYEEEVFSDSEPELDEE--DEVEEEQEERQPSPEPV |
| Parental | QENANSGYYEAHPVTNGIEEPLEESSHEPEPEPESETKTEELKPQVEEKNLEELEEKSATPPPAEPVSLP |
| QENANSGY.EAHPVTNGIEEPLEESSHEPEP.PESETKTEELKPQVEEKNLEELE.KS..PP.AE.VSLP | |
| Retrocopy | QENANSGYNEAHPVTNGIEEPLEESSHEPEPVPESETKTEELKPQVEEKNLEELE-KSTPPPLAETVSLP |
| Parental | QEPPKPRVEAKPEVQSQPPRVREQRPRERPGFPPRGPRPGRGDMEQNDSDNRRIIRYPDSHQLFVGNLPH |
| QEPPKPRVEAK.EVQSQPP.V.E..PR.RP.FP.RGPRPGRGD.E..D.DNRRII.YPDSHQLF.GNL.H | |
| Retrocopy | QEPPKPRVEAKTEVQSQPPPVCEE*PRQRPAFPARGPRPGRGDTELSDYDNRRIIHYPDSHQLFLGNLLH |
| Parental | DIDENELKEFFMSFGNVVELRINTKGVGGKLPNFGFVVFDDSEPVQRILIAKPIMFRGEV-RLNVEEKKT |
| DIDENEL..FFMSFGNVVEL.INTKGVG.KLPNFGFVVFDDSEPVQRILI.K.IMF.GEV..LNV..KKT | |
| Retrocopy | DIDENELE*FFMSFGNVVELHINTKGVGEKLPNFGFVVFDDSEPVQRILIVKLIMF*GEV<NLNVKKKKT |
| Parental | RAARERETRGGGDD-RRDIRRNDRGPGGPRGIVGGGMMRDRDGRGPPP |
| RA.RE.ETRGG.DD..R.IRRND.GPGGPRGIVGG.MM....GRGPPP | |
| Retrocopy | RATREQETRGGSDD>GRVIRRNDQGPGGPRGIVGGRMMHEHNGRGPPP |
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 |
|---|---|---|
| SRP051959_colon | 0 .09 RPM | 66 .87 RPM |
| SRP051959_heart | 0 .05 RPM | 43 .85 RPM |
| SRP051959_kidney | 0 .00 RPM | 65 .58 RPM |
| SRP051959_liver | 0 .02 RPM | 37 .54 RPM |
| SRP051959_lung | 0 .03 RPM | 59 .28 RPM |
| SRP051959_lymph_node | 0 .07 RPM | 63 .24 RPM |
| SRP051959_skeletal_muscle | 0 .02 RPM | 51 .17 RPM |
| SRP051959_spleen | 0 .11 RPM | 65 .32 RPM |
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_4164 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_4164 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cjac_4164 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 | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000019897 | 1 retrocopy |
retro_cjac_4164 ,
|
| Echinops telfairi | ENSETEG00000016219 | 1 retrocopy | |
| Gorilla gorilla | ENSGGOG00000014947 | 1 retrocopy | |
| Otolemur garnettii | ENSOGAG00000000157 | 1 retrocopy | |
| Ictidomys tridecemlineatus | ENSSTOG00000012975 | 1 retrocopy |