RetrogeneDB ID: | retro_ggor_2770 | ||
Retrocopy location | Organism: | Gorilla (Gorilla gorilla) | |
| Coordinates: | 9:5125222..5126358(+) | ||
| Located in intron of: | ENSGGOG00000007243 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | TCF3 | ||
| Ensembl ID: | ENSGGOG00000003667 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_ggor_2770
GGGGTCTATTCCTCCTTTGGTAGAGACGCAGGCGTGCGCAGCCTGACTCAGGCTGGCTTCCTGCCGGGCAAGCTGGCCCT
CAGCAGCCCCGGACCTCTGTCCCCTTCAGGCATGAAGGGGACCTCCCAGTACTACCCCTCCTACGCCAGCAGCTCTGGCG
GACAGAGGCGGACAGCGGCCTGGACACGCAGCCCACGAAGGTCGGGAATGTCCCGCCTGGTCTTCCATCCTTGGCGTACC
TGCCCAGCTCAGGTGAGGAGTACGGTAGGGATGCCGCCGCCTATCCATCCGCCAAGACGCCCAGCAGCGCCTGTCCCGCC
CCCTTCTACATGGCAGATGGCAGCCTGCACCCCTAAGCTGAGCTCTGGAGTTCCCCGGGCCAGGTGGGCTTTGGCCCCAT
GCTGGGCGGGGGCTCATCCCCCTCGTCCCTCCCGCCCGGCAGCGGCCCTGTGGGCAGTGGCGGAGGCAGCAGCACGTTTG
GCGGCCTGCACCAGCACGAGCGCATGGGCTACCAGCTGCACGGAGCAGAAGTGAACGGTGGGCTTCTGGCTGCATCCACC
TTCTCCTTGGCCCCCGGAGCCACGTACGGCGGCGTATCCAGCCACACGCCTGTCAGCGGGGCCGACAACCTCCTGGGCTC
CCGAGGGACCACAGCCAGCAGCTCTGGGGACGCCCTCGGGAAGGCCTGGCCTCAATCTACTCCCCGGATCACTCAAGCAA
TAACTTCTGGTCCAGCCCCTCCACCGCCGTGGGCTCCCCCCAGGGCCTGGGAGGGACGTCGCACTAGCCTGGAGCAGGAG
TCCCTGGTGCCTTATCACCCAGCTACGACGGGGGTCTCCACGGCCTGGAGAGTAAGATAGAAGACCACCTGAACGAGGGC
ATCCACGTGCTCTGCAGCTACGCCATGGGCACGGCTAGCAACGTGCACACGCTGCTGCCCGGCCACCGGGCGCTGGCCTT
GGGCTTCGCCGGCCCCATGCTGCTGGTGGGGGCAGCACGCAGGCCTGGTTGGAGGCGAACACCCTGAGGACGGCCCTGCG
GGCAGCGCCAGCTTCATGCACATCCATGTTGCCCTCTCCAGCTAGCCAGGCGCCCTCCCCGACCTCTCTTGGCCTCCCGA
CTCCTGCAGTGGGCTA
ORF - retro_ggor_2770 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 80.68 % |
| Parental protein coverage: | 57.93 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | GAYASFGRDAGVGGLTQAGFLSGELALSSPGPLSPSGMKGTSQYYPSYSGSSR-RRAADGSLDTQPKKVR |
| G.Y.SFGRDAGV..LTQAGFL.G.LALSSPGPLSPSGMKGTSQYYPSY..SS..R..AD..LDTQP.KV. | |
| Retrocopy | GVYSSFGRDAGVRSLTQAGFLPGKLALSSPGPLSPSGMKGTSQYYPSYASSSG<RTEADSGLDTQPTKVG |
| Parental | KVPPGLPSSVYPPGSGEDYGRDAAAYPSAKTPSSAYPAPFYVADGSLHPSAELWSPPGQAGFGPMLGGGS |
| .VPPGLPS..Y.P.SGE.YGRDAAAYPSAKTPSSA.PAPFY.ADGSLHP.AELWS.PGQ.GFGPMLGGGS | |
| Retrocopy | NVPPGLPSLAYLPSSGEEYGRDAAAYPSAKTPSSACPAPFYMADGSLHP*AELWSSPGQVGFGPMLGGGS |
| Parental | SPLPLPPGSGPVGSSGSSSTFGGLHQHERMGYQLHGAEVNGGLPSASSFSSAPGATYGGVSSHTPPVSGA |
| SP..LPPGSGPVGS.G.SSTFGGLHQHERMGYQLHGAEVNGGL..AS.FS.APGATYGGVSSHT.PVSGA | |
| Retrocopy | SPSSLPPGSGPVGSGGGSSTFGGLHQHERMGYQLHGAEVNGGLLAASTFSLAPGATYGGVSSHT-PVSGA |
| Parental | DSLLGSRGTTAGSSGDALGKA-LASIYSPDHSSNNFSSSPSTPVGSPQGLAGTSQWPRAGAPGALSPSYD |
| D.LLGSRGTTA.SSGDALGKA.LASIYSPDHSSNNF.SSPST.VGSPQGL.GTS..P.AG.PGALSPSYD | |
| Retrocopy | DNLLGSRGTTASSSGDALGKA<LASIYSPDHSSNNFWSSPSTAVGSPQGLGGTSH*PGAGVPGALSPSYD |
| Parental | GGLHGLQSKIEDHLDEAIHVLRSHAVGTAGDMHTLLPGHGALASGFTGPMSL-GGRHAGLVGGSHPEDGL |
| GGLHGL.SKIEDHL.E.IHVL.S.A.GTA...HTLLPGH.ALA.GF.GPM.L..G.HAGLVGG.HPEDG. | |
| Retrocopy | GGLHGLESKIEDHLNEGIHVLCSYAMGTASNVHTLLPGHRALALGFAGPMLL>WGQHAGLVGGEHPEDGP |
| Parental | AGSTSLMHNHAALPSQPGTLPDLSRPPDSYSAL |
| AGS.S.MH.H.AL.S.PG.LPDLS.PPDS.S.L | |
| Retrocopy | AGSASFMHIHVALSS*PGALPDLSWPPDSCSGL |
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 | 7 .77 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 8 .00 RPM |
| SRP007412_heart | 0 .13 RPM | 5 .16 RPM |
| SRP007412_kidney | 0 .00 RPM | 6 .38 RPM |
| SRP007412_liver | 0 .00 RPM | 4 .19 RPM |
| SRP007412_testis | 0 .10 RPM | 19 .37 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_2770 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ggor_2770 has 2 orthologous retrocopies within eutheria group .| Species | RetrogeneDB ID |
|---|---|
| Homo sapiens | retro_hsap_4123 |
| Macaca mulatta | retro_mmul_1194 |
Parental genes homology:
Parental genes homology involve 4 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Homo sapiens | ENSG00000071564 | 1 retrocopy | |
| Gorilla gorilla | ENSGGOG00000003667 | 1 retrocopy |
retro_ggor_2770 ,
|
| Macaca mulatta | ENSMMUG00000009017 | 1 retrocopy | |
| Nomascus leucogenys | ENSNLEG00000001742 | 1 retrocopy |