RetrogeneDB ID: retro_sara_706

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_261178:35310..35711(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RNF170
• Ensembl ID: ENSSARG00000006471
• Aliases: None
• Description: ring finger protein 170 [Source:HGNC Symbol;Acc:25358]

Sequence

>retro_sara_706
TCTGGAATGGCCAAATACCAAGTTGAAGTTCAGAGTTTGAAACTGGATGATGATTCAGTTATAGAAGGAGTCAGTGATAA
GTACTTATAGCAGTTGTGGTCAGTTTTGCTTTGATTGCTACCCTGCTATATGTACTTTTCAGAAATACATATCAAAATAT
TCATCCAGAAAACCAAGAGCTAGTAAGGGTGCTTCGGGAGCAACTTTAAACAGAACAGGATGCACCCGCTGCTGCCCGGC
AGCAGTTCTACACTGACATGAACTGTCCAATCTGTTTTCATCAAGCCTCCTTCCCTGTTGAAACAAACTGTGGACATCTT
TTTTGTGGTACTTGCATTATTGCATACTGGCGATACGGTTCATGGTTTGGGGCGATCAGTTGCCCAATCTGTAGACAAAC
T

Alignment

ORF - retro_sara_706 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.85 %
• Parental protein coverage: 51.54 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SGMAKYQVEVQSLKLDDDSVIEGVSDQ-VLVAVVVSFALIATLVYVLFRNAHQNIHPENQELVRVLREQL
          SGMAKYQVEVQSLKLDDDSVIEGVSD..VL.AVVVSFALIATL.YVLFRN..QNIHPENQELVRVLREQL
Retrocopy SGMAKYQVEVQSLKLDDDSVIEGVSDK<VLIAVVVSFALIATLLYVLFRNTYQNIHPENQELVRVLREQL

Parental  QTEQDAPTAARQQFYTDMYCPICLHQASFPVETNCGHLFCGTCIIAYWRYGSWLGAISCPICRQT
          .TEQDAP.AARQQFYTDM.CPIC.HQASFPVETNCGHLFCGTCIIAYWRYGSW.GAISCPICRQT
Retrocopy *TEQDAPAAARQQFYTDMNCPICFHQASFPVETNCGHLFCGTCIIAYWRYGSWFGAISCPICRQT

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_706 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
Macropus eugenii	ENSMEUG00000001127	1 retrocopy	retro_meug_862,
Monodelphis domestica	ENSMODG00000010090	1 retrocopy	retro_mdom_197,
Mus musculus	ENSMUSG00000013878	1 retrocopy	retro_mmus_2907,
Otolemur garnettii	ENSOGAG00000007925	1 retrocopy	retro_ogar_2905,
Pteropus vampyrus	ENSPVAG00000013497	1 retrocopy	retro_pvam_856,
Sorex araneus	ENSSARG00000006471	1 retrocopy	retro_sara_706 ,
Sarcophilus harrisii	ENSSHAG00000018446	1 retrocopy	retro_shar_118,