RetrogeneDB ID: retro_sara_55

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: GeneScaffold_1501:86573..87629(-)
• Located in intron of: ENSSARG00000001891

Retrocopy information

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

Parental gene information

• Parental gene symbol: API5
• Ensembl ID: ENSSARG00000003480
• Aliases: None
• Description: apoptosis inhibitor 5 [Source:HGNC Symbol;Acc:594]

Sequence

>retro_sara_55
CATAAAGATGCCTATCAAGTGATCCTGGATGGTGTGAAAGGTGGTACTAAGCAGAAAAGATTAGCAGCTCAGTTTATTCC
AAACTTCTTTAAGCATTTTCCAGAACTGGCCGATTCTGCTGTCAGTGCCCAGTTAGACCTCTGTGAGGATGAAGATGTGT
CTATTCGACGGCAAGCAACTAAGGAATTGCCTCAATTTGCCACTGGAGAAAATCTTCCCCGGGTGGCTGATATACTAACC
CAACTTTTACAAACAGATGACTAGGCAGAATTTAACTTAGTGAACAATGCCCTGTTAAGTATATTTAAGATGGATGCAAA
AGGGACTTTAGGTGGCTTGTTTAGCCAAATTCTTTAGGGAGAGGGGACATTGTTAGAGAACGAGCAATCAAATTTCTTTC
TACAAAACTTAAAACTTTACCAGATGAAGTCTTAACAAAGGAACTGAAGAACTTATCCTGACTGAATCTTAAAAGGTTCT
AGAAGATGTGACTGGTGAAGAATTTGTTCTTTTCATGAAGATCCTGTCTGGGTTGAAAAGCCTCCAGACCATGAGTGGAA
GCAGCAGCTTGTAGAGTTGGTGGCTGAGCAGGCCGTCTTAGAACAAACCTTCAGTCCCTCAGACCTGACTGTGTGGACAG
ACTCCTGCAGTGCACGCGACAGGCAGTTCCTCTTTTTTTCTAAAAATGTGCATTCCACAAAGTTTTTGACTTATTTCTGT
GAGCACGTTCTTCCTAACCTCAGTCCCTTGACTACCCCAGTGGAGGGTCTTGATATACAGTTGGAGGTATTGAAACTATT
GGCGGAGATGAGCTCATTTTGTGGAGACATGGAAAAACTAGGAACAAACTTAAGGAAACTCTTTGATAAGTTATTGGAGT
ACATGTCTCTTCCTCCAGAGGAAGCAGAAAATGGGGAAAATGCGTGCAACGAGGAACCCAAGCTGCAGTTCAGTTACGTT
GAGTGTTTGTTGTACAGCTTCCACCAGTTGGGACGGAAACTTCCAGATTTCTTAACAGCCAAACTGAATGCAGAAAAACT
CAAAGATTTCAAAATC

Alignment

ORF - retro_sara_55 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.66 %
• Parental protein coverage: 70.82 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  HKDAYQVILDGVKGGTKEKRLAAQFIPKFFKHFPELADSAINAQLDLCEDEDVSIRRQAIKELPQFATGE
          HKDAYQVILDGVKGGTK.KRLAAQFIP.FFKHFPELADSA..AQLDLCEDEDVSIRRQA.KELPQFATGE
Retrocopy HKDAYQVILDGVKGGTKQKRLAAQFIPNFFKHFPELADSAVSAQLDLCEDEDVSIRRQATKELPQFATGE

Parental  NLPRVADILTQLLQTDDSAEFNLVNNALLSIFKMDAKGTLGGLFSQILQGE-DIVRERAIKFLSTKLK-T
          NLPRVADILTQLLQTDD.AEFNLVNNALLSIFKMDAKGTLGGLFSQIL.GE..........F....LK.T
Retrocopy NLPRVADILTQLLQTDD*AEFNLVNNALLSIFKMDAKGTLGGLFSQIL*GEGTLLENEQSNFFLQNLK<T

Parental  LPDEVLTKEV-EELILTESKKVLEDVTGEEFVLFMKILSGLKSLQTVSG-RQQLVELVAEQADLEQTFNP
          LPDEVLTKE..EELILTES.KVLEDVTGEEFVLFMKILSGLKSLQT.SG..QQLVELVAEQA.LEQTF.P
Retrocopy LPDEVLTKEL<EELILTES*KVLEDVTGEEFVLFMKILSGLKSLQTMSG<KQQLVELVAEQAVLEQTFSP

Parental  SD-PDCVDRLLQCTRQAVPL-FSKNVHSTKFVTYFCEHVLPNLSSLTTPVEGLDIQLEVLKLLAEMSSFC
          SD.PDCVDRLLQCTRQAVPL.FSKNVHSTKF.TYFCEHVLPNLS.LTTPVEGLDIQLEVLKLLAEMSSFC
Retrocopy SD<PDCVDRLLQCTRQAVPL>FSKNVHSTKFLTYFCEHVLPNLSPLTTPVEGLDIQLEVLKLLAEMSSFC

Parental  GDMEKLETNLRKLFDKLLEYMPLPPEEAENGENAGNEEPKLQFSYVECLLYSFHQLGRKLPDFLTAKLNA
          GDMEKL.TNLRKLFDKLLEYM.LPPEEAENGENA.NEEPKLQFSYVECLLYSFHQLGRKLPDFLTAKLNA
Retrocopy GDMEKLGTNLRKLFDKLLEYMSLPPEEAENGENACNEEPKLQFSYVECLLYSFHQLGRKLPDFLTAKLNA

Parental  EKLKDFKI
          EKLKDFKI
Retrocopy EKLKDFKI

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_55 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Myotis lucifugus	ENSMLUG00000013546	1 retrocopy	retro_mluc_245,
Pongo abelii	ENSPPYG00000003345	1 retrocopy	retro_pabe_3805,
Sorex araneus	ENSSARG00000003480	1 retrocopy	retro_sara_55 ,