RetrogeneDB ID: retro_sara_694

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_25942:758..1169(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ATP5S
• Ensembl ID: ENSSARG00000007707
• Aliases: None
• Description: ATP synthase, H+ transporting, mitochondrial Fo complex, subunit s (factor B) [Source:HGNC Symbol;Acc:18799]

Sequence

>retro_sara_694
GTGGATCATGAGCGTGCATCGGAGGGGTTGGCCCCGGCTTCTGAGTGGCTGCTACGCTGTGGGGCCATGGTGTGATACCA
CAGCCAGGAGAGGTGGCAGAAGAACTACAACAGCCTCCCATCAGGCTTGCTGGACAAGTACAAGATTCAGGCTATCGGTG
ACACTGAGTCTTGAATCATGAGCATTGGCTTCGAACACCTGGAGGGCCTCCAACATGTTGAGAAAATAAGGTTGTGCAAG
TGTCATTATATAGAAGATGACTGTTTGGAGAAACTTAGTCAATTCAAAAATCTACAAAAATGCATTTTGGAAATGGAAAT
AATTTCATGTGGGAATGTCACAGACAAAGGTGTCATTGCTCTGCATCATTTAAAAAACCTCAAGTATTTGTTGTTAAGTG
ATCTTCCTGGA

Alignment

ORF - retro_sara_694 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.4 %
• Parental protein coverage: 56.61 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VDHERIKEVGPAAFEWLLRCGAMWRYHRQGRWQKNYNSLPSGSLDKYKIQAIDATDSCIMSIGFEHLEGL
          VDHER..E....A.EWLLRCGAM..YH.Q.RWQKNYNSLPSG.LDKYKIQAI..T.S.IMSIGFEHLEGL
Retrocopy VDHERASEGLAPASEWLLRCGAMV*YHSQERWQKNYNSLPSGLLDKYKIQAIGDTES*IMSIGFEHLEGL

Parental  QHVEKIRLCKCHYIEDECLEKLSQFKNLQKSILEMEIISCGNVTDKGVIALHHLRNLEYLLLSDLPG
          QHVEKIRLCKCHYIED.CLEKLSQFKNLQK.ILEMEIISCGNVTDKGVIALHHL.NL.YLLLSDLPG
Retrocopy QHVEKIRLCKCHYIEDDCLEKLSQFKNLQKCILEMEIISCGNVTDKGVIALHHLKNLKYLLLSDLPG

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_694 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 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000009828	1 retrocopy	retro_amel_377,
Canis familiaris	ENSCAFG00000014285	1 retrocopy	retro_cfam_267,
Cavia porcellus	ENSCPOG00000014471	1 retrocopy	retro_cpor_740,
Felis catus	ENSFCAG00000029962	1 retrocopy	retro_fcat_72,
Loxodonta africana	ENSLAFG00000013773	1 retrocopy	retro_lafr_167,
Pteropus vampyrus	ENSPVAG00000006173	1 retrocopy	retro_pvam_539,
Sorex araneus	ENSSARG00000007707	1 retrocopy	retro_sara_694 ,