RetrogeneDB ID: | retro_mmul_860 | ||
Retrocopy location | Organism: | Rhesus macaque (Macaca mulatta) | |
| Coordinates: | 11:41214407..41214931(-) | ||
| Located in intron of: | ENSMMUG00000000205 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | IQCF1 | ||
| Ensembl ID: | ENSMMUG00000004352 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_mmul_860
AAAGATGAGCCTCAGCAGAAGGAGATGCTGGGCCATTTTTCTTCAGAACCATTAACCTCAAAGTCGAAGGCAGAGGCCAA
AACTCTGGCTCTGGTTAAGACACAAACAGTGGATAATGCGAATGAGAAATTCAGAAACCCCCCAGAAAACCAAAAGAAGC
TCTCTGACAAAGATACGGCAATCATCAAGATCCAAACCTAGTGGCGGGGCACCCTGGTGGACCAGGCACTGTGGCACACA
GCCCTTAGCACCTGGATCATTCAGTGCTGCTGGCAGCTGATACCGTCCAGGATTCTGGAGATGAGGCAGTGGACGGCACT
GGAGGCCTTCTCACGGGAGAAGTGGGCAGCAGTCACACTGCAGTCCCTGGCCCACATGTGCCACATCTGCCAGTGCTAAT
GCCACATTCTCAATGCTGTCTGCATCATCCAGGACGACTGGAGGTGCCTCTGTGTTTCTTGGAGGCTCATCAAGGTTCGT
TACAGAGTGATGGCCAACCACTGCCTCTTGAGCTGGAGATCTTG
ORF - retro_mmul_860 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 63.28 % |
| Parental protein coverage: | 84.39 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | EDEPQQKETLTHLSLE---AEWKAEAKTPVLVETQRVDNANEKLEKPPENQKKLSDKDMVATKIQAWWRG |
| .DEPQQKE.L.H.S.E......KAEAKT..LV.TQ.VDNANEK...PPENQKKLSDKD....KIQ..WRG | |
| Retrocopy | KDEPQQKEMLGHFSSEPLTSKSKAEAKTLALVKTQTVDNANEKFRNPPENQKKLSDKDTAIIKIQT*WRG |
| Parental | TLVRRALLHAALSACIIQCWWRLILSKILEKRRRAALEAFSREEWAAVTLQSQARMWRIRRRYCQVLNAV |
| TLV..AL.H.ALS..IIQC.W.LI.S.ILE.R...ALEAFSRE.WAAVTLQS.A.M..I....C..LNAV | |
| Retrocopy | TLVDQALWHTALSTWIIQCCWQLIPSRILEMRQWTALEAFSREKWAAVTLQSLAHMCHICQC*CHILNAV |
| Parental | RIIQAYWRCRSCASRGFIKGQYRVTANQ-LHLQLEIL |
| .IIQ..WRC..C.S...IK..YRV.AN..L.L.LEIL | |
| Retrocopy | CIIQDDWRC-LCVSWRLIKVRYRVMANH<LPLELEIL |
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 | 0 .11 RPM |
| SRP007412_brain_prefrontal_cortex | 0 .08 RPM | 0 .48 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 0 .32 RPM |
| SRP007412_heart | 0 .00 RPM | 0 .00 RPM |
| SRP007412_kidney | 0 .00 RPM | 0 .00 RPM |
| SRP007412_liver | 0 .00 RPM | 0 .00 RPM |
| SRP007412_testis | 0 .00 RPM | 135 .88 RPM |
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_860 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_860 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmul_860 has 2 orthologous retrocopies within eutheria group .| Species | RetrogeneDB ID |
|---|---|
| Homo sapiens | retro_hsap_1109 |
| Pan troglodytes | retro_ptro_689 |
Parental genes homology:
Parental genes homology involve 4 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Homo sapiens | ENSG00000173389 | 1 retrocopy | |
| Gorilla gorilla | ENSGGOG00000012462 | 1 retrocopy | |
| Macaca mulatta | ENSMMUG00000004352 | 1 retrocopy |
retro_mmul_860 ,
|
| Pan troglodytes | ENSPTRG00000014977 | 1 retrocopy |