RetrogeneDB ID: retro_sara_580

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_235579:9045..9575(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NUDT21
• Ensembl ID: ENSSARG00000006493
• Aliases: None
• Description: nudix (nucleoside diphosphate linked moiety X)-type motif 21 [Source:HGNC Symbol;Acc:13870]

Sequence

>retro_sara_580
GAGCTCCTCTATGAGAAAGACAGTTCTGTTGCAGCCAGATTTCAGCGCATGAGAGCGGAATTTGATAAATTGGAATGATG
AGGACTGTCGAAAGGGTCCTGATTGTACATGAGCATCGGCTACCTCATGTGTTACTGCTATAGCCTGGAACAACTTTCTT
CAAATTACCTGGTGGTGAACTTAACCCAGGAGAAGATGAAGTTGAAGGATTAAAACGCTTAATGACAGAGATACTGGGTC
GTCAGGATGGAGTCCTACAGGACTGAGTCATTGATGATTGCATTGGTAACTGATGGAGACAGAATTTTGAGCCTCCTCAG
TATCCTTAAATTCCTGCACATATTACAAAACCTAAGGAACATAAGAAGTTGTTTTTGGTTTAGCTTCAAGAGAAAGCCTT
GTTTGCAGTTCCTAAGAATTATAAGCTGGTAGCTGCACCATTGTTTGAATTGTATGACAATGCACCAGGATATGGACCTA
TCATTTCTAGTCTTCCTCAGGTTTTGAGCAGGTTCAATTTTATATACAAC

Alignment

ORF - retro_sara_580 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.7 %
• Parental protein coverage: 77.97 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  EPLYEKDSSVAARFQRMREEFDK-IGMRRTVEGVLIVHEHRLPHVLLLQLGTTFFKLPGGELNPGEDEVE
          E.LYEKDSSVAARFQRMR.EFDK.IGM.RTVE.VLIVHEHRLPHVLLL..GTTFFKLPGGELNPGEDEVE
Retrocopy ELLYEKDSSVAARFQRMRAEFDK<IGMMRTVERVLIVHEHRLPHVLLL*PGTTFFKLPGGELNPGEDEVE

Parental  GLKRLMTEILGRQDGVLQDWVIDDCIGNWWRPNFEPPQYPYIPAHITKPKEHKKLFLVQLQEKALFAVPK
          GLKRLMTEILGRQDGVLQD.VIDDCIGN.WR.NFEPPQYP.IPAHITKPKEHKKLFLV.LQEKALFAVPK
Retrocopy GLKRLMTEILGRQDGVLQD*VIDDCIGN*WRQNFEPPQYP*IPAHITKPKEHKKLFLV*LQEKALFAVPK

Parental  NYKLVAAPLFELYDNAPGYGPIISSLPQLLSRFNFIYN
          NYKLVAAPLFELYDNAPGYGPIISSLPQ.LSRFNFIYN
Retrocopy NYKLVAAPLFELYDNAPGYGPIISSLPQVLSRFNFIYN

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_580 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.

---

Parental genes homology:

Parental genes homology involve 8 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000010207	2 retrocopies	retro_btau_1655, retro_btau_937,
Callithrix jacchus	ENSCJAG00000012724	3 retrocopies	retro_cjac_1121, retro_cjac_2211, retro_cjac_4100,
Loxodonta africana	ENSLAFG00000028465	1 retrocopy	retro_lafr_610,
Mustela putorius furo	ENSMPUG00000003451	1 retrocopy	retro_mputfur_158,
Nomascus leucogenys	ENSNLEG00000001963	2 retrocopies	retro_nleu_1477, retro_nleu_2493,
Oryctolagus cuniculus	ENSOCUG00000017224	2 retrocopies	retro_ocun_154, retro_ocun_87,
Sorex araneus	ENSSARG00000006493	2 retrocopies	retro_sara_161, retro_sara_580 ,
Sus scrofa	ENSSSCG00000029848	2 retrocopies	retro_sscr_117, retro_sscr_185,