RetrogeneDB ID: retro_sara_631

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_245143:218691..219168(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSSARG00000003714
• Aliases: None
• Description: None

Sequence

>retro_sara_631
ATGGCTACTACCCAGCAGTTCCCCAAGCTTGTGCAGCTGGAGCAGCCAGAGGGCGCGTTCTTCAAAGTACATGGCAACCT
CACCAAGAAGCTCTACTGGTTCCTCTTTGACTACTTGAAGAGTCCGAAGGCAGTTCACCTGGAGGGGTGGCTGATGGAGG
CGATCTTCAGCAGGGGTGGAAAGCACATCCCTCATGTTGAGTGTACGTCCCAGACCCTCCTCCGCGTGAATTGGTGGGAT
CCCGCCTGCGAAGCTGAAATCCTGATATTTGGTCGTCCTTAATACCAGCTGGACGTGTTCAAGATAATCAGGAACTTGGC
TTACTATCACCGCCAACTCCGGGCTCAAAGGTCCCAGAAGACGCTTGTCCAAGATACAGGGACCCAGCGCTCCCTCAACG
CGCTCCAGGAGGCTGCTACCTTGCGCTCTCCCGATGTGCTCTGCGAAGCAGCGACCCAATCCAATTTAGACAGTATT

Alignment

ORF - retro_sara_631 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.36 %
• Parental protein coverage: 76.08 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MATSPQFPTLVQLEQREGAFFEVHGNLTKKPDWFLSDYLKSPKAVHLEGWMVEAIFGRGGKHIPHVECTS
          MAT..QFP.LVQLEQ.EGAFF.VHGNLTKK..WFL.DYLKSPKAVHLEGW..EAIF.RGGKHIPHVECTS
Retrocopy MATTQQFPKLVQLEQPEGAFFKVHGNLTKKLYWFLFDYLKSPKAVHLEGWLMEAIFSRGGKHIPHVECTS

Parental  QTLLHVNRWDPAGKAEILIFGRPHYQLDVSKMIWNLADYHRQLRALRSQKTLVQETGTRRSPDRFREAGT
          QTLL.VN.WDPA..AEILIFGRP.YQLDV.K.I.NLA.YHRQLRA.RSQKTLVQ.TGT.RS.....EA.T
Retrocopy QTLLRVNWWDPACEAEILIFGRP*YQLDVFKIIRNLAYYHRQLRAQRSQKTLVQDTGTQRSLNALQEAAT

Parental  QRSPDALREAATQRSRDSL
          .RSPD.L.EAATQ...DS.
Retrocopy LRSPDVLCEAATQSNLDSI

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_631 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 5 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000007887	1 retrocopy	retro_amel_1880,
Callithrix jacchus	ENSCJAG00000009947	1 retrocopy	retro_cjac_1153,
Myotis lucifugus	ENSMLUG00000004469	1 retrocopy	retro_mluc_2196,
Ochotona princeps	ENSOPRG00000013565	3 retrocopies	retro_opri_322, retro_opri_406, retro_opri_651,
Sorex araneus	ENSSARG00000003714	1 retrocopy	retro_sara_631 ,