RetrogeneDB ID: | retro_cjac_1721 | ||
Retrocopy location | Organism: | Marmoset (Callithrix jacchus) | |
| Coordinates: | 19:1207765..1208358(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | BPNT1 | ||
| Ensembl ID: | ENSCJAG00000007430 | ||
| Aliases: | None | ||
| Description: | 3'(2'), 5'-bisphosphate nucleotidase 1 [Source:HGNC Symbol;Acc:1096] |
Retrocopy-Parental alignment summary:
>retro_cjac_1721
GCAGAAATGATAGTCAGATGTGTTGTTACTGAAGGAAACCCGGGCATCGTGGAGAAGACCTGTGCAGCCAGAGCTGACCG
ATTGGTACAGATGAGCACGTGTTCTTCACTGGCCCAGAAATCCCCCAAACTAACCGTTATGGGGTAAGAGGATCTGCCTT
CCGAGGAAGTGGATCAAGAACTGACCGAAGACGGTCAGCGGGAGGAAGTACTGAAACAAGCACACCCGTCGCAGTACAGC
GCTATTAAAGAAGATCTTGTGGTCTGGGTTAATCCTCCGTACGGAAGCAAGAAAGACACCAGTGGTCTTCTTGACAATGT
AACAGTTCTCATTGGAATCGCTCATGAAGGAAAGTCATAGCAGGAATTATTAACCAGCCATATTACAACTGTGAGGCAGG
ACCAGATGCTGTGCTGGGGAGGACGATCTGGGGAGTCTTAGGTTTAGGTGCCTTTGGGTTTCAGCTGGAAGAAGTCCCCA
CTGGGAAACACAGGATCACAACTACCCGATCCCATAGCAAGAAGTTGGTTACTGACTGTGTTACCGCCATGAACCCCGAT
GTTGTGCTGCGAGTGGGAGCGGGAAATAAGATT
ORF - retro_cjac_1721 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 80.0 % |
| Parental protein coverage: | 90.67 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | AGMIVRRVIAEGDLGIVEKTCATDLQTKADRLVQMSICSSLARKFPKLTIIGEEDLPSEEVDQELIEDGQ |
| A.MIVR.V..EG..GIVEKTCA......ADRLVQMS.CSSLA.K.PKLT..G.EDLPSEEVDQEL.EDGQ | |
| Retrocopy | AEMIVRCVVTEGNPGIVEKTCAA----RADRLVQMSTCSSLAQKSPKLTVMG*EDLPSEEVDQELTEDGQ |
| Parental | WEEILKQPCPSQYSAIKEEDLVVWVDPLDGTKEYTEGLLDNVTVLIGIAYEGKA-IAGIINQPYYNYEAG |
| .EE.LKQ..PSQYSAIKE.DLVVWV.P..G.K..T.GLLDNVTVLIGIA.EGK..IAGIINQPYYN.EAG | |
| Retrocopy | REEVLKQAHPSQYSAIKE-DLVVWVNPPYGSKKDTSGLLDNVTVLIGIAHEGKS<IAGIINQPYYNCEAG |
| Parental | PDAVLGRTIWGVLGLGAFGFQLKEVPAGKHIITTTRSHSNKLVTDCVTAMNPDVVLRVGGAGNKV |
| PDAVLGRTIWGVLGLGAFGFQL.EVP.GKH.ITTTRSHS.KLVTDCVTAMNPDVVLRV.GAGNK. | |
| Retrocopy | PDAVLGRTIWGVLGLGAFGFQLEEVPTGKHRITTTRSHSKKLVTDCVTAMNPDVVLRV-GAGNKI |
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 .04 RPM | 4 .33 RPM |
| SRP051959_heart | 0 .05 RPM | 3 .46 RPM |
| SRP051959_kidney | 0 .04 RPM | 3 .39 RPM |
| SRP051959_liver | 0 .00 RPM | 3 .49 RPM |
| SRP051959_lung | 0 .02 RPM | 2 .80 RPM |
| SRP051959_lymph_node | 0 .05 RPM | 2 .56 RPM |
| SRP051959_skeletal_muscle | 0 .02 RPM | 1 .07 RPM |
| SRP051959_spleen | 0 .00 RPM | 2 .79 RPM |
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_1721 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_1721 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cjac_1721 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 | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000007430 | 1 retrocopy |
retro_cjac_1721 ,
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