RetrogeneDB ID: | retro_itri_1392 | ||
Retrocopy location | Organism: | Squirrel (Ictidomys tridecemlineatus) | |
| Coordinates: | JH393472.1:2028034..2028458(+) | ||
| Located in intron of: | ENSSTOG00000016252 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ZMYM6NB | ||
| Ensembl ID: | ENSSTOG00000020434 | ||
| Aliases: | None | ||
| Description: | ZMYM6 neighbor [Source:HGNC Symbol;Acc:40021] |
Retrocopy-Parental alignment summary:
>retro_itri_1392
CTGCTGGGTGGCTTCTTTGTACTCATGGGTTGGCCAAGCTCTCGCAGATCTCTGCTCTTGTGTCACAGCAGAGGAAAGCC
CTGTTGCTGCAGTTTGCTAAGGTGTTCGCATTGAAGTTGTTCGGCTACCAGTCAGATCCTGTGAGCTACCCAACAGCTGT
GGGCTGGCTGGAGCTGCTGGCTGGGTGGCTGTTGGTTGTGGGCCCACCAGTTCTACAAGATATCAGTAACTTGCTCTTGA
CCCTCCCCACGATGGTGGCTGTCTTCACTATGGCATCTCTGAAAGAGTCACTGAGGTCTCCATCCCAGCCATCATCTGCT
TGGGGCTCCTGCTGTTGCTGGACATCTGCCAGTTCTTAGCCCAAGCCAAGAATGTGGTCATACACTCTAGGAAGAAGACT
CCGAGTGCATTCAAGGAACCCTGG
ORF - retro_itri_1392 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 79.86 % |
| Parental protein coverage: | 92.81 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | LLGGFFALTG-AAKLSQISAPVSQQMKALFVQFAEVFPLKLFGYQPDPVNYQTAVGWLELLAGLLLVVGP |
| LLGGFF.L.G..AKLSQISA.VSQQ.KAL..QFA.VF.LKLFGYQ.DPV.Y.TAVGWLELLAG.LLVVGP | |
| Retrocopy | LLGGFFVLMG<LAKLSQISALVSQQRKALLLQFAKVFALKLFGYQSDPVSYPTAVGWLELLAGWLLVVGP |
| Parental | PVLQDISNFLLTLLMMVAIFTLVSLKESL-STSIPAIVCLGLLLLLDVCQFLAQTKKMVRHSRKKTPSAF |
| PVLQDISN.LLTL..MVA.FT..SLKESL...SIPAI.CLGLLLLLD.CQFLAQ.K..V.HSRKKTPSAF | |
| Retrocopy | PVLQDISNLLLTLPTMVAVFTMASLKESL<EVSIPAIICLGLLLLLDICQFLAQAKNVVIHSRKKTPSAF |
| Parental | KEPW |
| KEPW | |
| Retrocopy | KEPW |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Ictidomys tridecemlineatus was not studied using RNA-Seq expression data.
Ictidomys tridecemlineatus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_itri_1392 retrocopy.
Ictidomys tridecemlineatus was not studied using FANTOM5 data.
retro_itri_1392 was not experimentally validated.
Retrocopy orthology:
Ictidomys tridecemlineatus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Ictidomys tridecemlineatus | ENSSTOG00000020434 | 1 retrocopy |
retro_itri_1392 ,
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