RetrogeneDB ID: retro_sara_466

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_218018:810..1425(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: TRMT61B
• Ensembl ID: ENSSARG00000000247
• Aliases: None
• Description: tRNA methyltransferase 61 homolog B (S. cerevisiae) [Source:HGNC Symbol;Acc:26070]

Sequence

>retro_sara_466
GGGGGCACGCGGAATGGGCCCCCGCGGGAGAGCTTGCGGAGCCGGGCGGGGGAGCTGGTCCTGGCCAAGACGGGCGGAGG
AAGACCCCGCTATCAGAAGCTGTTCAGGCTGAGCCCCAACGGGCACTTCAACAGCAGCTGGGGGACCGTCTGGCACCGCG
ACGTGCTGGGCTGCTGCCGGCCAGGTGGTGCGCAGCTCGCGGGCAGGGAGCACCTGCTGCAGAGGCCGATGCTGGAGGAC
TACGTGCTGCTGATGAGGAGGGGACCTGCCATCACGTACCCGAAGGATGTGAGTATGTTGCTATTGATGACGGCCATCCA
CCCAGGTGATACCGTCTTGGAAGCTGGCTCCGGTTCTGGTGGAACCAGCCTGTTTTTGTCCAGAGCAGTTGGACCACAAG
GAAGAGTTAAAAGTTTTGAAATACGGAAAGATCACCATGAATTGGCTAAGAAGAATTACAGACATTGGCGTGATTCATGG
AAGATAAGTCATGCAGAAGAGTGGCCAGATAATGTGGAATTTATTCATAAGGATATTTCCAGAGCAACGCAGGACATCTA
ATCCTTAATATTTGATGTTTTTTTAGAAGCACTCCTTGATTTAAAGAAAGCACTT

Alignment

ORF - retro_sara_466 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.38 %
• Parental protein coverage: 57.06 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  GGRARGAGRGDAPFRPGELVLAETGRRETRYQRLFRLSPDGHFNSSWGTVWHRDVL-GRLP-GQVVRSS-
          GG...G..R.....R.GELVLA.TG....RYQ.LFRLSP.GHFNSSWGTVWHRDVL.G.LP.GQVVRSS.
Retrocopy GGTRNGPPRESLRSRAGELVLAKTGGGRPRYQKLFRLSPNGHFNSSWGTVWHRDVL<GLLP<GQVVRSS<

Parental  AGREHLLRRPTLEDYVLLMRRGPAITYPKDVSMLLLMMDIHPGDTVLEAGSGSGGMSLFLSKAVGPKGRV
          AGREHLL.RP.LEDYVLLMRRGPAITYPKDVSMLLLM..IHPGDTVLEAGSGSGG.SLFLS.AVGP.GRV
Retrocopy AGREHLLQRPMLEDYVLLMRRGPAITYPKDVSMLLLMTAIHPGDTVLEAGSGSGGTSLFLSRAVGPQGRV

Parental  ISFEIRKDHHELAKKNYRHWRDSWKISHAEEWPDNVEFIHKDISRATQDIKSLIFDAVALDMLNPQVAL
          .SFEIRKDHHELAKKNYRHWRDSWKISHAEEWPDNVEFIHKDISRATQDI.SLIFD......L....AL
Retrocopy KSFEIRKDHHELAKKNYRHWRDSWKISHAEEWPDNVEFIHKDISRATQDI*SLIFDVFLEALLDLKKAL

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Sorex araneus was not studied using RNA-Seq expression data.

ChIP-Seq

Sorex araneus was not studied using ChIP-Seq data.

EST

Sorex araneus was not studied using EST data.

TSS

Sorex araneus was not studied using FANTOM5 data.

Lab

retro_sara_466 was not experimentally validated.

Homology

Retrocopy orthology:

Sorex araneus 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.

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Sorex araneus	ENSSARG00000000247	1 retrocopy	retro_sara_466 ,