RetrogeneDB ID: | retro_mdom_1042 | ||
Retrocopy location | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | 3:335829977..335830721(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | GSR | ||
| Ensembl ID: | ENSMODG00000019004 | ||
| Aliases: | None | ||
| Description: | glutathione reductase [Source:HGNC Symbol;Acc:4623] |
Retrocopy-Parental alignment summary:
>retro_mdom_1042
GTACTTCAATCTTTCCATGCATTAATTGTTTCCAACTGCACTGAAGAACTGGAGAATGCTGTCATCAAGGTCCCAAAGTA
CTCCCAGGTCAAGGAAGTGAAGATCTCCTTAAACTTGAAACTGACCATAGTGATGGCGAAGCCCATCTGCACAGTCCCTG
GTATTGACTCCCTATTGTTGGCCATTGGGTACACCCTAAACATCCAGAGCTTGAATCTGAACAAGGTAGGCTTTCAGAGT
GATGATAAAGGGTACATCCTGGTTGATGAATTCCAGAACCCCAACAGAAAGGGCATCTATCCTGTTGGGGGATGTGTGTG
GAAAAACTCTTCTTACTCCAGTCTCAATCACACTTGCACACAGAATTTTTTTAATACAAATTGTACTCCACACTAAACTA
TGAAAACATCCCAACTGTAGTGTTCAGTCACCTGTTGATTGTCACACAGGGACTCGTGGAAGATAAAGCCATTTCTAAAA
ATGGAAAAGGAAATGTGAAGATATTTCTGACTTCCTTTACCCCTATGTACCAAGAGGTGACAAGAAGGAAAACCAAGTGA
GTGATGAAGCTGTGTGTGATATGCCCAAAATGAAGAGAAGTTGGTGGGTATCTGCATTCAAGGAATTGGGTGTGATGAGA
TGCTGCAAGATTTTGCAGTGCCTGTGAAGATGGATGCCACATATAATAACTTTGACAACATGGTCATCAGCCACTAGATC
TCTTCTGAACAGCTGGTCACTCTC
ORF - retro_mdom_1042 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 66.54 % |
| Parental protein coverage: | 53.78 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | VLRSFDALISSNCTEELEHAGVEVLRYSQVKEVKKTSSGLELTVVTARPSGKPTFCTVSDVDCLLWAIGR |
| VL.SF.ALI.SNCTEELE.A...V..YSQVKEVK..S..L.LT.V.A....KP..CTV...D.LL.AIG. | |
| Retrocopy | VLQSFHALIVSNCTEELENAVIKVPKYSQVKEVK-ISLNLKLTIVMA----KP-ICTVPGIDSLLLAIGY |
| Parental | TPNIQGLNLNKLGIQTDDKGHIVVDEFQNTNRKGIYAVG-DVCGKALLTPVAIAAGRKLAHRLFEC-KLD |
| T.NIQ.LNLNK.G.Q.DDKG.I.VDEFQN.NRKGIY.VG.DVCGK.LLTPV.I.....LAHR.F...KL. | |
| Retrocopy | TLNIQSLNLNKVGFQSDDKGYILVDEFQNPNRKGIYPVG>DVCGKTLLTPVSIT----LAHRIFLI>KLY |
| Parental | SKLDYENIPTVVFSHPPIGTVGLTEDEAISKYGKENVKIYLTSFTPMYHAVTRRKTKCVMKL-VCAQKEE |
| S.L.YENIPTVVFSH..I.T.GL.ED.AISK.GK.NVKI.LTSFTPMY..VTRRKTK.VMKL.V...K.. | |
| Retrocopy | STLNYENIPTVVFSHLLIVTQGLVEDKAISKNGKGNVKIFLTSFTPMYQEVTRRKTK*VMKLCVICPK*R |
| Parental | KV-VGIHMQGIGCDEMLQGFAVAVKMGATKADFDNTVAIHPTSAEELVTL |
| .V.VGI..QGIGCDEMLQ.FAV.VKM.AT...FDN.V..H..S.E.LVTL | |
| Retrocopy | EV>VGICIQGIGCDEMLQDFAVPVKMDATYNNFDNMVISH*ISSEQLVTL |
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 .00 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 0 .00 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 | 0 .00 RPM |
Monodelphis domestica was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mdom_1042 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_1042 was not experimentally validated.
Retrocopy orthology:
Monodelphis domestica 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 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000007115 | 1 retrocopy | |
| Choloepus hoffmanni | ENSCHOG00000009523 | 1 retrocopy | |
| Monodelphis domestica | ENSMODG00000019004 | 1 retrocopy |
retro_mdom_1042 ,
|