RetrogeneDB ID: | retro_shar_641 | ||
Retrocopy location | Organism: | Tasmanian devil (Sarcophilus harrisii) | |
| Coordinates: | GL856902.1:2448294..2449082(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | SEC61A1 | ||
| Ensembl ID: | ENSSHAG00000013915 | ||
| Aliases: | None | ||
| Description: | Sec61 alpha 1 subunit (S. cerevisiae) [Source:HGNC Symbol;Acc:18276] |
Retrocopy-Parental alignment summary:
>retro_shar_641
GAGTCTACAAAAGACTACAATCTATTAAAGGGACCTCAGAAGTTATTTGTTATGATTTTATCATTGGGCAAACCATTGTG
TGTGTGTGATGACTGGGATGTATGGAGATCATAATGAATTAAGTTCTGAAGTTTTTCTACTTAGTCAATCAATTTTCTGT
TGTTTCTTTGATTGTACTGCTGTCAGATGAACTTTTACAGGATGGTTACAACTCAGAGTTGGGTATTTCATTTTTAATTG
CTACTAATATATGTCAAACCATCATCCTGATGGTGTTTAGCCCCACTGCCATTAACGCTGGTAAAAGAACTGAGTTTGAG
GGTTCAATCATTGCTCCATTTCACTTATTGGTTAACAGAATAGACAAAACTCATATTCAAGAAGCCTTCCATCCATCACC
ATATTTCGCTCAGTCTCATGAAACCCATTGTTACATTCTTTGTGTTTGCTATTATTATATACCTTCAGGAATTTCATGTC
AATTTACCCATCAAGTCTGCTCAAAATTATACACAATACAGTAGTTATCCCATCAAGCTCTTCTCCAGTTTCAACATTCC
TATCATTCTTCAATCTGTCCTGTTTCTATATGTTATATTCCAGACGTCATTTGTCCAGTTTAGTGGCCACTTTTTATTTT
TATTAGAATAATGGTCTGATGGAATTGCAAAAGGTCCTGCATGTTACTACTTAATTAAAGTCCTATGTTAGTATGTTTCT
CCTCCAGAATATAAAAGTGCCATATTTGAAAATCCTGTCCATATTGTTTTCACATAATCTTTATGCTG
ORF - retro_shar_641 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 50.74 % |
| Parental protein coverage: | 55.19 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 4 |
Retrocopy - Parental Gene Alignment:
| Parental | DTPKDRALFNGAQKLFGMIITIGQSI-VYVMTGMYGDPSEMGAGICLLITIQLF-VAGLIVLLLDELLQK |
| ...KD..L..G.QKLF.MI...G....V.VMTGMYGD..E.......L.....F.V..LIVLL.DELLQ. | |
| Retrocopy | ESTKDYNLLKGPQKLFVMILSLGKPL>VCVMTGMYGDHNELSSEV-FLLSQSIF>VVSLIVLLSDELLQD |
| Parental | GYGLGSGISLFIATNICETIVWKAFSPTTVNTGRGMEFEGAIIALFHLLATRTD-KVRALREAFYRQNLP |
| GY....GIS..IATNIC.TI....FSPT..N.G...EFEG.IIA.FHLL..R.D.K.............. | |
| Retrocopy | GYNSELGISFLIATNICQTIILMVFSPTAINAGKRTEFEGSIIAPFHLLVNRID>KLIFKKPSIHHHISL |
| Parental | NLMNLIATIFVFAVVIYFQGFRVDLPIKSARYRGQYNTYPIKLFYTSNIPIILQSALVSNLYVISQMLSA |
| .LM..I.T.FVFA..IY.Q.F.V.LPIKSA....QY..YPIKLF...NIPIILQS.L...LYVI.Q.... | |
| Retrocopy | SLMKPIVTFFVFAIIIYLQEFHVNLPIKSAQNYTQYSSYPIKLFSSFNIPIILQSVLF--LYVIFQTSFV |
| Parental | RFSGNLLVSLLGTWSDTSSGGPARAYPVGGLCYYLSPPESFGSVLEDPVHAV-VYIVFML |
| .FSG..L..LL..WSD....GPA..Y....LC.Y.SPPE......E.PVH.V...I.FML | |
| Retrocopy | QFSGHFLF-LLE*WSDGIAKGPACYYLIKVLC*YVSPPEYKSAIFENPVHIV<FHIIFML |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Sarcophilus harrisii was not studied using RNA-Seq expression data.
Sarcophilus harrisii was not studied using ChIP-Seq data.
Sarcophilus harrisii was not studied using EST data.
Sarcophilus harrisii was not studied using FANTOM5 data.
retro_shar_641 was not experimentally validated.
Retrocopy orthology:
Sarcophilus harrisii 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 | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000015763 | 1 retrocopy | |
| Sarcophilus harrisii | ENSSHAG00000013915 | 1 retrocopy |
retro_shar_641 ,
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