RetrogeneDB ID: retro_sara_365

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_180224:2773..3706(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSSARG00000007346
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: RRP8
• Ensembl ID: ENSSARG00000007949
• Aliases: None
• Description: ribosomal RNA processing 8, methyltransferase, homolog (yeast) [Source:HGNC Symbol;Acc:29030]

Sequence

>retro_sara_365
CAGCTAGATAAGGTTAACCAAACAGGACCCAAAGCTTGCTGAAAGTAGTGCTACAAGTGACGCGTCCACATTCAAACCAA
ACCCTGAGATCTCTTCCCCTAATCCACCCCACACTTTGAGTCGCAAGCAGTGGCAGAACCGGCAGAAGAACAAGCGTAGA
CAGAAAAACAAGTTTCGACCCCCTCAGCCGACTGACCAGACTTCGGTCACAGCTCCCACAGTGCAGACAGAGGTGCCTCC
TGTCCCCAGTCCAGACAGCCAGGATGCTCGGGCGGGAGCTCTGCGAGCCCGTATGACGCAGAGGCTGGATGGTGCCCGAT
TTCGCTACCTCAATGAACAGTTATACTCAAAGCCCAGTAGTGCTGCCCAAAGCCTTTTTGAAGAAGACCCTGAGGCCTTT
CTTCTCTACCACCGAGGCTATCAGAATCAAGTCAAGAAGTGGCCACTGCATCCTGTGGACCGCATTGCCAAAGATCTCCG
CCAAAGGCCTGCATCCCTCGTGGTGGCTGATTTTGGCTGTGATTTTGCCGCCTGGCTTCTAGTGTCCAGAATCCTGTTCA
TTGCTTTGACTTGGCCTCTCTGGATCCCGGAGTTACTGTGTGTGACATGGCTGAGGTTCCTCTGGAGGATGAGTCTGTAG
ATGTGGCTGTGTTCTGTCTTTCATTGATGGGAACCAACATCAGGGACTTCCTAGAAGAGGCAAATCGAGTGCTGAAGCCA
GGGGGTCTCCTTGAAGTGGCTGAAGTCAGCAGCCGCTTTGAAGATGTTCGGGCCTTTCTGGGGGCTGTGACCAAACTGGG
TTTTAAGATCATCTTCAAGGATTTGACCAACAGTTACTTCTTGTTTGATTTTCAAAAGACTGGACCTCCTCGGGTAGGGC
CCAAAGCACAACAATCAGGCCTGAAGCTTCAGCCATGTCTCTATAAGCGTAGG

Alignment

ORF - retro_sara_365 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.68 %
• Parental protein coverage: 68.28 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  QLDNVNQTGPKVC-ESSATSDPHS--KQPEISSPNPPHTLSRKQWRNRQKNKRRQKNKFRPPQLTDQTSA
          QLD.VNQTGPK.C.ESSATSD.......PEISSPNPPHTLSRKQW.NRQKNKRRQKNKFRPPQ.TDQTS.
Retrocopy QLDKVNQTGPKAC>ESSATSDASTFKPNPEISSPNPPHTLSRKQWQNRQKNKRRQKNKFRPPQPTDQTSV

Parental  TAPTVQTEVPPVPNPDSQDARAGALRARMTQRLDGARFRYLNEQLYSKPSSAAQSLFQEDPEAFLLYHRG
          TAPTVQTEVPPVP.PDSQDARAGALRARMTQRLDGARFRYLNEQLYSKPSSAAQSLF.EDPEAFLLYHRG
Retrocopy TAPTVQTEVPPVPSPDSQDARAGALRARMTQRLDGARFRYLNEQLYSKPSSAAQSLFEEDPEAFLLYHRG

Parental  YQNQVKKWPLHPVDRIAKDLRQRPASLVVADFGCG-DCRLASSVRNPVHCFDLASLDPRVTVCDMAEVPL
          YQNQVKKWPLHPVDRIAKDLRQRPASLVVADFGC...CRLASSV.NPVHCFDLASLDP.VTVCDMAEVPL
Retrocopy YQNQVKKWPLHPVDRIAKDLRQRPASLVVADFGCD<FCRLASSVQNPVHCFDLASLDPGVTVCDMAEVPL

Parental  EDESVDVAVFCLSLMGTNIRDFLEEANRVLKPGGLLKVAEVSSRFEDVRAFLGAVTKLGFKIIFKDLTNS
          EDESVDVAVFCLSLMGTNIRDFLEEANRVLKPGGLL.VAEVSSRFEDVRAFLGAVTKLGFKIIFKDLTNS
Retrocopy EDESVDVAVFCLSLMGTNIRDFLEEANRVLKPGGLLEVAEVSSRFEDVRAFLGAVTKLGFKIIFKDLTNS

Parental  YFFLFDFQKTGPPRVGPKAQLSGLKLQPCLYKRR
          Y.FLFDFQKTGPPRVGPKAQ.SGLKLQPCLYKRR
Retrocopy Y-FLFDFQKTGPPRVGPKAQQSGLKLQPCLYKRR

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_365 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	ENSSARG00000007949	1 retrocopy	retro_sara_365 ,