RetrogeneDB ID: retro_sara_528

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_230881:15490..15907(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: UBE2R2
• Ensembl ID: ENSSARG00000005734
• Aliases: None
• Description: ubiquitin-conjugating enzyme E2R 2 [Source:HGNC Symbol;Acc:19907]

Sequence

>retro_sara_528
ACCTTCAGATTCTTGACCAAAATGTGGCACTCCAACATTTATGAGAATGGAGATGTATGCATTTCAATTCTTCACCCACC
TGTAGATGATCCACAAAGTGGAGAACTGCCCTCTGAAAGGTGGAATCCTACTCAGAATGTCAGGACTATCCTGTTAAGTG
TAATCTCACTGCTCAATGAATCCAACACCTTCTCCCCAGCCAACGTGGATGCTTCGGTTATGTTCAGGAAATGGAGGGAC
AGTAAAAGAAAAGACAAAGAATATGCTGAAATCATTAGGAAACAGGTCTCAGCCACTAAGGCCGAAGCAGAAGCAGAAAA
GGATGGAGTGATGGTCCCCACAACCCTGGCAGAATACTGTATCCAAACTAAAGTGCCTTCCAATGACAACAGTTCAGATT
TGCTTTATGACAGCTTG

Alignment

ORF - retro_sara_528 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.53 %
• Parental protein coverage: 57.81 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  TFRFLTKMWHPNIYENGDVCISILHPPVDDPQSGELPSERWNPTQNVRTILLSVISLLNEPNTFSPANVN
          TFRFLTKMWH.NIYENGDVCISILHPPVDDPQSGELPSERWNPTQNVRTILLSVISLLNE.NTFSPANV.
Retrocopy TFRFLTKMWHSNIYENGDVCISILHPPVDDPQSGELPSERWNPTQNVRTILLSVISLLNESNTFSPANVD

Parental  ASVMFRKWRDSKGKDKEYAEIIRKQVSATK--AEAEKDGVKVPTTLAEYCIKTKVPSNDNSSDLLYDDL
          ASVMFRKWRDSK.KDKEYAEIIRKQVSATK..AEAEKDGV.VPTTLAEYCI.TKVPSNDNSSDLLYD.L
Retrocopy ASVMFRKWRDSKRKDKEYAEIIRKQVSATKAEAEAEKDGVMVPTTLAEYCIQTKVPSNDNSSDLLYDSL

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_528 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 6 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000011574	1 retrocopy	retro_etel_1226,
Myotis lucifugus	ENSMLUG00000006793	1 retrocopy	retro_mluc_2175,
Oryctolagus cuniculus	ENSOCUG00000023588	3 retrocopies	retro_ocun_131, retro_ocun_1719, retro_ocun_1793,
Sorex araneus	ENSSARG00000005734	1 retrocopy	retro_sara_528 ,
Tarsius syrichta	ENSTSYG00000013265	7 retrocopies	retro_tsyr_1118, retro_tsyr_1526, retro_tsyr_1527, retro_tsyr_1819, retro_tsyr_432, retro_tsyr_494, retro_tsyr_830,
Tursiops truncatus	ENSTTRG00000010587	1 retrocopy	retro_ttru_724,