RetrogeneDB ID: | retro_meug_2117 | ||
Retrocopy location | Organism: | Wallaby (Macropus eugenii) | |
| Coordinates: | Scaffold92081:2431..2987(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | GMDS | ||
| Ensembl ID: | ENSMEUG00000014600 | ||
| Aliases: | None | ||
| Description: | GDP-mannose 4,6-dehydratase [Source:HGNC Symbol;Acc:4369] |
Retrocopy-Parental alignment summary:
>retro_meug_2117
CTCATCACTGACATCGCCAGCCAGGATGGCTTGTATTTGACTGAATTCCTGCTGGAAAAGGGTTATGAGGTCCATGAAAT
TGTACGTTAATCAAGTTCCTTCAACACAGGGTGGATCAAGCATCTCTATAAGAACCTTCACGCTCATATTGAAGGAAATA
TGAAATTGCATTATGGAGATCTCACAGACAGTATCTGCCTTGTGAAGATAATTAATGAAGTAAAACCTACAGAAATCTAC
AACTTGGGAGCCCAGACATGTCAAAATTTCTTTTGACCTTGTTGAATATACTGCTGATGTTGATGGTGTTGGCACTCTAT
GGCTTCTTGATGCAATTAAAACTTGTGTCCTTATCAATTCTGTAAAGTTCTATCAAGCCTCAACAAGTGAACTTTATTGG
AAAGTACAAGAAATACCACAAAAGGAGATGACCCCTTTTTATCCTTGGTCACCATATGGAGCAACAAAACTTTATGCTTA
CTAGATTGTGGTGAACTTCTGTGACGCCTACAACCTGTTTGCTGTGAATGGTATTCTTTTTAATCATGAGAGTCCC
ORF - retro_meug_2117 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 83.51 % |
| Parental protein coverage: | 52.87 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | LITGITGQDGSYLAEFLLEKGYEVHGIVRRSSSFNTGRIEHLYKNPQAHIEGNMKLHYGDLTDS-CLVKI |
| LIT.I..QDG.YL.EFLLEKGYEVH.IVR.SSSFNTG.I.HLYKN..AHIEGNMKLHYGDLTDS.CLVKI | |
| Retrocopy | LITDIASQDGLYLTEFLLEKGYEVHEIVR*SSSFNTGWIKHLYKNLHAHIEGNMKLHYGDLTDSICLVKI |
| Parental | INEVK-TEIYN-LGAQS-HVKISFDHVEYTADVDGVGTLQLLDAIKTCCLSNSVKFNQTSTSELYGKVQE |
| INEVK.TEIYN.LG....HVKISFD.VEYTADVDGVGTL.LLDAIKTC.L.NSVKF.Q.STSELY.KVQE | |
| Retrocopy | INEVKPTEIYN<LGSPD<HVKISFDLVEYTADVDGVGTLWLLDAIKTCVLINSVKFYQASTSELYWKVQE |
| Parental | IPQKEKTPFYPRSPYGATKLYAYWIVVNFHEAYNLFAVNGVLFNHESP |
| IPQKE.TPFYP.SPYGATKLYAY.IVVNF..AYNLFAVNG.LFNHESP | |
| Retrocopy | IPQKEMTPFYPWSPYGATKLYAY*IVVNFCDAYNLFAVNGILFNHESP |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Macropus eugenii was not studied using RNA-Seq expression data.
Macropus eugenii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_meug_2117 retrocopy.
Macropus eugenii was not studied using FANTOM5 data.
retro_meug_2117 was not experimentally validated.
Retrocopy orthology:
Macropus eugenii 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 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Macropus eugenii | ENSMEUG00000014600 | 1 retrocopy |
retro_meug_2117 ,
|
| Monodelphis domestica | ENSMODG00000008260 | 1 retrocopy |