RetrogeneDB ID: retro_sara_505

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_228965:17201..17687(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NT5C3B
• Ensembl ID: ENSSARG00000006434
• Aliases: None
• Description: 5'-nucleotidase, cytosolic IIIB [Source:HGNC Symbol;Acc:28300]

Sequence

>retro_sara_505
GAGGGATATGGCACGTTCTTCAACACCCTCCACCAAAACAACATCCATCTGTTCATCTTCTCCGCGGGCATTGGCGACGT
CCTGGAAGAAATCATCCGGCAGATGAAAGTGTTCCACTCCAACATCCACATCATGTCCAATTACATGGATTTTGATGATG
ACGGTTTCCTCCGCGGATTCAAGGGCCAGCACATCCACACATACAATCAGAACAGCTCCGTGTGCAAGAACTCCGGGTAC
TTCTAGCAGCTGCAGGGCAGGACCAACGTCCTCCTGCTGGGGGACTCCATGGGCGACCTGACCATGGCCGACGGTGTGCC
TGGCGTGCAGAACATCCTCAGGGTTGGCTTCCTCAATGACAAGGTGGCCGAGCGGTGGGAGCGCTACCTGGATGCCTATG
ACATCGTGCTGGAGCAGGACGAGATGCTGGATGTGGTCAACGGGCTGCTGCAGCACATCCTGGGCCAAGGGGGACGGATG
GAGGCG

Alignment

ORF - retro_sara_505 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.44 %
• Parental protein coverage: 98.78 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EGYGTFFNTLHQNNIPLFIFSAGIGDVLEEIIRQMKVFHSNIHIVSNYMDFDDDGFLRGFKGQLIHTYNK
          EGYGTFFNTLHQNNI.LFIFSAGIGDVLEEIIRQMKVFHSNIHI.SNYMDFDDDGFLRGFKGQ.IHTYN.
Retrocopy EGYGTFFNTLHQNNIHLFIFSAGIGDVLEEIIRQMKVFHSNIHIMSNYMDFDDDGFLRGFKGQHIHTYNQ

Parental  NSSVCENSGYFQQLHGRTNVLLLGDSMGDLTMADGVPGVQNILRVGFLNDKVAERRERYLDAYDIVLEQD
          NSSVC.NSGYF.QL.GRTNVLLLGDSMGDLTMADGVPGVQNILRVGFLNDKVAER.ERYLDAYDIVLEQD
Retrocopy NSSVCKNSGYF*QLQGRTNVLLLGDSMGDLTMADGVPGVQNILRVGFLNDKVAERWERYLDAYDIVLEQD

Parental  ETLDVVNGLLQHILGQGGRMEA
          E.LDVVNGLLQHILGQGGRMEA
Retrocopy EMLDVVNGLLQHILGQGGRMEA

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_505 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 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000005754	1 retrocopy	retro_amel_1542,
Erinaceus europaeus	ENSEEUG00000013493	1 retrocopy	retro_eeur_413,
Felis catus	ENSFCAG00000023499	1 retrocopy	retro_fcat_1017,
Mustela putorius furo	ENSMPUG00000010759	2 retrocopies	retro_mputfur_1354, retro_mputfur_1594,
Pan troglodytes	ENSPTRG00000009181	1 retrocopy	retro_ptro_2082,
Pteropus vampyrus	ENSPVAG00000010634	1 retrocopy	retro_pvam_233,
Sorex araneus	ENSSARG00000006434	1 retrocopy	retro_sara_505 ,