RetrogeneDB ID: retro_sara_249

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_130870:6114..6633(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSSARG00000003161
• Aliases: None
• Description: None

Sequence

>retro_sara_249
GCCTTCTCCACTATGTCTTGGATGTTCCTCTCCTGCCTGATGCTTTTATCTCAGGTCCAAGGTGAAGAGCTGCAGAAGGT
TCCACCCAGTGGGCAACTGGCTGCACGGATCAGCTGTCCAAAAGGTTCTATGGCCTATTTCTCACACTGCTATGCCTTAT
ATAAGACACCAGCTACCTGGATGGATGCAGAAATGACTTGCCAGAGGCGGCCCTCGGGACACCTTGCATATGTGCTTACT
GGATCTGAGGCCTCCTTCGTGTCCTCCTTGATCAGAAACAGCATGAGTGCCCAGTCCTACATCTGGATCGGGCTTCATGA
CCCCACAGAGGGCTCTCAGCCCAATGGAGTTGGATGGGAGTGGAGCAGCACTGATGTGATGAACTATCAAGCCTGGGAGA
ATAGGCCTCCCACAAGCCCCAACAATGGTTACTGTGGCAGTGTGACACGAAGCTCAGGATTCCGTAAATGGAAAGATTAC
AGCTGTGAAATGAAATTACCCTATGTCTGCAAATTTGAG

Alignment

ORF - retro_sara_249 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.9 %
• Parental protein coverage: 96.55 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ALSSMSWMLLCCLMLVSQVHGEDIQKEQP----AARISCPRGSMAYSSHCYALYTKPTSWMDAEIACQKR
          A.S.MSWM.L.CLML.SQV.GE..QK..P....AARISCP.GSMAY.SHCYALY..P..WMDAE..CQ.R
Retrocopy AFSTMSWMFLSCLMLLSQVQGEELQKVPPSGQLAARISCPKGSMAYFSHCYALYKTPATWMDAEMTCQRR

Parental  PSGHLASILTGSEASFVSALMKNTVSLHSYAWIGLHDPTEGCQLNGGGWNWSSNDALNYHAWE-ETPTLN
          PSGHLA..LTGSEASFVS.L..N..S..SY.WIGLHDPTEG.Q.NG.GW.WSS.D..NY.AWE...PT..
Retrocopy PSGHLAYVLTGSEASFVSSLIRNSMSAQSYIWIGLHDPTEGSQPNGVGWEWSSTDVMNYQAWENRPPTSP

Parental  SNAFCGTVSQNSGFRKWATANCDMKLPYICKFE
          .N..CG.V...SGFRKW....C.MKLPY.CKFE
Retrocopy NNGYCGSVTRSSGFRKWKDYSCEMKLPYVCKFE

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_249 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	ENSSARG00000003161	1 retrocopy	retro_sara_249 ,