RetrogeneDB ID: retro_sara_2

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_184220:17322..17967(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSSARG00000009997
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSSARG00000012256
• Aliases: None
• Description: None

Sequence

>retro_sara_2
ATGGGTCGCCGCCCGGCCCGCTGTTATCGGTACTGTAAGAATAAGCCGTACCCGAAGTCGCGCTTCTGTCGCGGCGTTCC
CGATGCCAAGATCCGCATCTTTGACCTGGGTCGGAAGAAGGCGAAGGTGGACGAGTTCCCGCTGTGCGGCCACATGGTGT
CGGATGAGTACGAGCAGCTCTCCTCCGAAGCCCTGGAGGCCGCCCGCATCTGCGCCAACAAGTACATGGTGAAAAGTTGC
GGCAAAGACGGCTTCCACATCCGCGTGCGGCTCCATCCCTTCCACGTCATCCGCATCAACAAGATGCTGTCGTGTGCCGG
CGCCGACCGCCTGCAGACGGGCATGCGGGGCGCGTTCGGGAAGCCGCAGGGCACAGTGGCCCGAGTCCACATTGGGCAAG
TCATCATGTCCATCCGTACCAAGCTGCAGAACAAGGAGCATGTGATCGAAGCCTTACGCCGGGCCAAGTTCAAATTCCCC
GGCCGCCAGAAGATTCACATCTCCAAGAAGTGGGGCTTCACCAAGTTCAATGCCAGCGAGTTTGAAGAGCAAGTGGCCCA
GAAGCGCCTCATCCCGGACGGGTGCGGAGTCAAGTACGTCCCCGACCGAGGCGCACTGGACAAGTGGCGAGCGCTGCACG
CGTGA

Alignment

ORF - retro_sara_2 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.51 %
• Parental protein coverage: 93.55 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GRRPAWAYRYCKNKPYPKSRFC-GVPDAKIRIFDLGRKKAKVDEFPLCGHMVSDEYEQLSSEALEAARIC
          GRRPA..YRYCKNKPYPKSRFC.GVPDAKIRIFDLGRKKAKVDEFPLCGHMVSDEYEQLSSEALEAARIC
Retrocopy GRRPARCYRYCKNKPYPKSRFCRGVPDAKIRIFDLGRKKAKVDEFPLCGHMVSDEYEQLSSEALEAARIC

Parental  ANKYMVKSCGKDGFHIRVRLHPFHVIRINKMLSCAGADRVPTGMRGAFGNPHGTVVMVHIGGVIISRLTK
          ANKYMVKSCGKDGFHIRVRLHPFHVIRINKMLSCAGADR..TGMRGAFG.P.GTV..VHIG.VI.S..TK
Retrocopy ANKYMVKSCGKDGFHIRVRLHPFHVIRINKMLSCAGADRLQTGMRGAFGKPQGTVARVHIGQVIMSIRTK

Parental  QNN--HVI
          ..N..HVI
Retrocopy LQNKEHVI

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_2 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 3 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000013163	3 retrocopies	retro_meug_1839, retro_meug_5, retro_meug_547,
Monodelphis domestica	ENSMODG00000008731	2 retrocopies	retro_mdom_177, retro_mdom_829,
Sorex araneus	ENSSARG00000012256	1 retrocopy	retro_sara_2 ,