RetrogeneDB ID: retro_sara_305

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_155578:4119..4814(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GORASP2
• Ensembl ID: ENSSARG00000007686
• Aliases: None
• Description: golgi reassembly stacking protein 2, 55kDa [Source:HGNC Symbol;Acc:17500]

Sequence

>retro_sara_305
TTTGATTCAATTGTTTCTATTTATGGTTCTAGATTAAATAAAGACAATGACATTCTTAAAGATTTACGTTTAAGCAAACG
TTGGAAAGCCTGTAAAAAATGCTTGCCTACAGCAGTAAAACACGGGCACTCCGCGAAACCTCAGTCACACCAAGTATCAT
CGGGGGGGAGGGGGGGGGGCAGGGCCTGTGGGGAGTGAGCATGTGCTCCTGCAGCTTTGATGGGGCCAATTAGAATGTGT
GGCACGTGTTGGAAGTGGAATCAAGTTCTCCTGTGGCACGGAAGGTCTTCGACCTCGCAGTGGTTCTATCGTTGGAGCAG
ATACTGTCATGAATGAGTCTGAAGATCTGCTCAGCCTCATTGAAACACATGAAGCAAAACCGTTGAAACTTGAAGTGTAT
AATACAGACACTGACAACTGTCGGGAAGTGACCATTACACCAAACTCTGCACGGGTGGAGAAGGTAGCACAGGATGTGGC
ATTGGATATGGATATTTGCATCGAATACCTACTAGCCCGTTTGGAGAAGGAAGAAAATTTCTCTTCCAGGACAAATGTCC
AGTCCAGCTGTGACTCCTCTTAAAGATGGGTGTACAGAGGTCCAGCTGTCCTCGGTTAAACCTCCATCTTTGTCAACCCC
AGGAACTACAGAAATTGGACCGAGTCTGTCTGGACTCTCTATCAGCTCCTCCCCC

Alignment

ORF - retro_sara_305 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.53 %
• Parental protein coverage: 53.26 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  FDFIVSINGSRLNKDNDTLKDL-LKANVEKPV-KMLIYSSKTLELRETSVTPSNMWGGQGLLGV---SIR
          FD.IVSI.GSRLNKDND.LKDL...ANV.KPV.KML.YSSKT..LRETSVTPS.........G....S..
Retrocopy FDSIVSIYGSRLNKDNDILKDL>V*ANVGKPV>KMLAYSSKTRALRETSVTPSIIXXXXXXQGLWGVSMC

Parental  FCSFDGANENVWHVLEVESNSPAA-LAGLRPHSDYIIGADTVMNESEDLFSLIETHEAKPLKLYVYNTDT
          .CSFDGAN.NVWHVLEVES.SP.A...GLRP.S..I.GADTVMNESEDL.SLIETHEAKPLKL.VYNTDT
Retrocopy SCSFDGAN*NVWHVLEVESSSPVA<TEGLRPRSGSIVGADTVMNESEDLLSLIETHEAKPLKLEVYNTDT

Parental  DNCREVIITPNSA-WGGEGSLGCGIGYGYLHRIPTRPFEEG-KKISLPGQMTSTPVTPLKXXXXXVQLSS
          DNCREV.ITPNSA..GGEGS.GCGIGYGYLHRIPT.PF.EG.KKISLPGQM.S..VTPLK.....VQLSS
Retrocopy DNCREVTITPNSA<TGGEGSTGCGIGYGYLHRIPTSPFGEG<KKISLPGQMSSPAVTPLKDGCTEVQLSS

Parental  VNPPSLSTPGTTEIEQSLSGLSISSTP
          V.PPSLSTPGTTEI..SLSGLSISS.P
Retrocopy VKPPSLSTPGTTEIGPSLSGLSISSSP

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_305 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000007263	1 retrocopy	retro_dnov_1915,
Mustela putorius furo	ENSMPUG00000000812	1 retrocopy	retro_mputfur_676,
Sorex araneus	ENSSARG00000007686	1 retrocopy	retro_sara_305 ,
Tarsius syrichta	ENSTSYG00000014516	1 retrocopy	retro_tsyr_1657,