RetrogeneDB ID: | retro_ggor_1984 | ||
Retrocopy location | Organism: | Gorilla (Gorilla gorilla) | |
| Coordinates: | 3:155324784..155325342(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | SYPL1 | ||
| Ensembl ID: | ENSGGOG00000006497 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_ggor_1984
ATCATTTCCATCTGTGCTTTTGCCACTTGTGGAGATTTTAAGGACAAAACTGATATTTGAATAAGTCGTTCTCCTAAAAT
TACTGACATTAAAACAATTACTGCTATTTTTTGGTTATCCATTCAGGTTGAATCAGGCATCATTTCAGTCACCTCCAGAT
GTAAATGTGTGTGACGTAAATTGGAAAAGTCATGTCTTTATAGGAGGTTTCTCTTCTTCTGCACAATTCTGTCTTATATT
TGTAGTCTTTGTCTTCTTGCATTGCATTTCTGCTCTTCTGCTTTATGTTGGTTACATGAACACATATGGGCATAGTGAAA
AAAAAAAAAACCTTTCCATAACTGACTTTGTTGCAGCTCTTTTTGCCACTTTTTGAGGTTAGTGAGCCTTTCAACCTAGG
CTAAAGCTCTTACAAATGCTGAAATAGCTACCAGTCACAATAATATTCAGGAACATCTGCCTTGCAATCAGCGAAGAGTA
ACATGTTCATTTGGCTCTATGACTACCATGGGGTCCCTAAATGGATCTGTGATCTTTGGCTTTAGGGAGGAAATGCTT
ORF - retro_ggor_1984 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 59.04 % |
| Parental protein coverage: | 78.21 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | IASIFAFATCGGFKGQTEIQVNCPPAITENKTVTAT-FGYPFRLNEASFQPPPGVNICDVNWKDYVLIGD |
| I.SI.AFATCG.FK..T.I.....P.IT..KT.TA..FGYPFRLN.ASFQ.PP.VN.CDVNWK..V.IG. | |
| Retrocopy | IISICAFATCGDFKDKTDI*ISRSPKITDIKTITAI>FGYPFRLNQASFQSPPDVNVCDVNWKSHVFIGG |
| Parental | YSSSAQFYVTFAVFVFLYCIAALLLYVGYTSLYLDS---RKLPMIDFVVTLVAT-FLWLVSTSAWAKALT |
| .SSSAQF...F.VFVFL.CI.ALLLYVGY...Y..S.....L...DFV..L.AT.FL.LVS.S..AKALT | |
| Retrocopy | FSSSAQFCLIFVVFVFLHCISALLLYVGYMNTYGHSXXXXXLSITDFVAALFAT<FLRLVSLST*AKALT |
| Parental | DIKIATGHNIIDELPPCKKKAVLCYFGSVTSMGSLNVSVVFSYLNSSL |
| ...IAT.HN.I.E..PC....V.C.FGS.T.MGSLN.SV.F......L | |
| Retrocopy | NAEIATSHNNIQEHLPCNQRRVTCSFGSMTTMGSLNGSVIFGFREEML |
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_prefrontal_cortex | 0 .00 RPM | 3 .93 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 4 .02 RPM |
| SRP007412_heart | 0 .00 RPM | 3 .16 RPM |
| SRP007412_kidney | 0 .00 RPM | 33 .16 RPM |
| SRP007412_liver | 0 .00 RPM | 11 .47 RPM |
| SRP007412_testis | 0 .00 RPM | 56 .25 RPM |
Gorilla gorilla was not studied using ChIP-Seq data.
Gorilla gorilla was not studied using EST data.
Gorilla gorilla was not studied using FANTOM5 data.
retro_ggor_1984 was not experimentally validated.