RetrogeneDB ID: retro_sara_250

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_131139:1677..2294(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NSUN3
• Ensembl ID: ENSSARG00000001660
• Aliases: None
• Description: NOP2/Sun domain family, member 3 [Source:HGNC Symbol;Acc:26208]

Sequence

>retro_sara_250
GATATACTAACATCTCCCTCATGTTGGCAATATGCTGTCGTTTTTAACCAATTCAACTATTCCTGTGAACTGGAAAAGCA
TCTACATTTGGAGGGCTATCATGTCCTCTTTCAAGGCTCCTTACCCTACTATCCGAAACCAGTGAAGTGTTACCTTAGCA
GAACTCTGAGCTAATACCTTCGGAAAGATACCGAATGGAACAACTCAAGAGATACTATCTCCTGAATGCCGCCTCTCTTC
TTCTAGTAATGGCTCTGGAACTAAGAGATGGGGAGAACTTTCCAGATATGTGTACTGCTCCTGGAGGCAAATCTACAGGT
CTGCTGCTGTGTGCTTGTCCAGGTTTTCTTCACTGTAATGAATACGACAGTCTGAGATGGAGCTCGTTGAGACAGACCTT
AGAATCTATCATCCCCAACCCTCTGATAGATGTAATTAAAGAGTCTAAATTGGATGGTAGAAAAATGGGAGATACTCATC
CAGAAACATTTGACAAGGTGTTAGTTGATGCTCCATACACAAAAGATAGAAATTGGTTGTTCTTGTCTGATTCTCAGAAG
GCTGCTGGTAGAATAATCCAGAGGAGGAATTTGCCTATTCTGCAGGTAGAACTCTTA

Alignment

ORF - retro_sara_250 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.81 %
• Parental protein coverage: 84.77 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  DILTSPSCWQYAVLLNRFNYSCDLETHLRLQGYHALFRGSLPYYPESVKCYLSRT-PDRMPSERHRAGQL
          DILTSPSCWQYAV..N.FNYSC.LE.HL.L.GYH.LF.GSLPYYP..VKCYLSRT.....PSER.R..QL
Retrocopy DILTSPSCWQYAVVFNQFNYSCELEKHLHLEGYHVLFQGSLPYYPKPVKCYLSRT<SELIPSERYRMEQL

Parental  KRYYLLNAASLLPVLALELRDGEKVLDMCAAPGGKSIGLLQCADPGFLHCNEYNSLRLRWLRQTLESFIP
          KRYYLLNAASLL.V.ALELRDGE...DMC.APGGKS.GLL.CA.PGFLHCNEY.SLR...LRQTLES.IP
Retrocopy KRYYLLNAASLLLVMALELRDGENFPDMCTAPGGKSTGLLLCACPGFLHCNEYDSLRWSSLRQTLESIIP

Parental  QPLIDVIKVSELDGREMGDVHPETFDKVLVDAPCSNDRSWLFSSDSQKAACRISQRKNLPVLQIELL
          .PLIDVIK.S.LDGR.MGD.HPETFDKVLVDAP...DR.WLF.SDSQKAA.RI.QR.NLP.LQ.ELL
Retrocopy NPLIDVIKESKLDGRKMGDTHPETFDKVLVDAPYTKDRNWLFLSDSQKAAGRIIQRRNLPILQVELL

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_250 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	ENSSARG00000001660	1 retrocopy	retro_sara_250 ,