RetrogeneDB ID: retro_sara_769

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_99132:584..951(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GSTA4
• Ensembl ID: ENSSARG00000009989
• Aliases: None
• Description: glutathione S-transferase alpha 4 [Source:HGNC Symbol;Acc:4629]

Sequence

>retro_sara_769
GTGGATGGGACCCTGAAACTGCATGAGCTGCTCCGTCATAGCTAATCCTTTGAAATCGGATGAACAACCAAAGGAGGTGG
CCAGCATGGTCCAGAAGACCATGCTTTAGTATAATCCTGTGTTTGAAAAGACTTTAAGGGATCACAGGCAAAGGTTTCTC
AGTGGCAATCAGCTCAGTTTTGCAGATGTGATTGTATTCCAAACCATTTTGATGTTAGGAGAGAAAATCCCTAATATCCT
GTTTGCATCTCCTCACCTCCAGGAATTATCAGTGAATTTTTATGAAACTTGCAGCAATAAATAAGTTCATAAATAAATTC
ACCCCTTCTCCCATGACACCTATGTGAGAACCACCTATAGCATCTTT

Alignment

ORF - retro_sara_769 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 58.59 %
• Parental protein coverage: 64.77 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  VEGTLDLLELL-IMHPFLKPDDQQKEVVSMAQKAIIRYFPVFEKVLREHGQRFLVGNQLSLADVILLQTI
          V.GTL.L.ELL......LK.D.Q.KEV.SM.QK....Y.PVFEK.LR.H.QRFL.GNQLS.ADVI..QTI
Retrocopy VDGTLKLHELL>VIANPLKSDEQPKEVASMVQKTML*YNPVFEKTLRDHRQRFLSGNQLSFADVIVFQTI

Parental  LALEEKIPNILSAFPHLQEFSVK-ISNVPTIKKFLEPGSKKKPPP-DDIYVRTVYNIF
          L.L.EKIPNIL.A.PHLQE.SV........I.KF.....K..P.P..D.YVRT.Y.IF
Retrocopy LMLGEKIPNILFASPHLQELSVN>FMKLAAINKFI---NKFTPSP<HDTYVRTTYSIF

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_769 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	ENSAMEG00000005658	1 retrocopy	retro_amel_787,
Bos taurus	ENSBTAG00000004288	1 retrocopy	retro_btau_670,
Canis familiaris	ENSCAFG00000024066	1 retrocopy	retro_cfam_1440,
Felis catus	ENSFCAG00000005237	1 retrocopy	retro_fcat_1199,
Monodelphis domestica	ENSMODG00000018810	1 retrocopy	retro_mdom_954,
Mustela putorius furo	ENSMPUG00000008911	1 retrocopy	retro_mputfur_1383,
Sorex araneus	ENSSARG00000009989	1 retrocopy	retro_sara_769 ,