RetrogeneDB ID: retro_sara_135

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: GeneScaffold_4064:8363..8845(-)
• Located in intron of: ENSSARG00000001331

Retrocopy information

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

Parental gene information

• Parental gene symbol: SERBP1
• Ensembl ID: ENSSARG00000000803
• Aliases: None
• Description: SERPINE1 mRNA binding protein 1 [Source:HGNC Symbol;Acc:17860]

Sequence

>retro_sara_135
ACTGACTTGGATCAATCAAATGTGACTGAGGAAACACCTGAAGGTGAAGAACATCCAGTTGAGACACTGAAAATACGGAG
AACGAAGTTGAAGAAGTAAAGGAATAGGGTCCAAAAGAGATGACTTTGAATGAATGGAAGGCAACTCAGAATAAGGACCG
TGCAAAAGTAGAACTTAATATTCGAAAACCAAATGAAGGTGCTGATGGTCAGTGGAAAAAGGGATTTGTTCTTCATAAGT
CAAAGAGTGAAGAGGCTCATGCTGAAGATTCGGTTATGGACCATCATTTCCGGAAGCCAGCAAATGATATAACATCTCAG
CTGGAGATCAATTTTGGAGACCTTGGCCGCCCAGGACGTGGTGGCAGGGGAGGAAGAGGAGGCCGTAGGCATGGTGGGAG
TCCAAATCGTGGTAGCAGAACTGACAAGTCAAATACTTCTGCTCCTGATGTAGATGACCCAGAGGCATTCCCAGCTCTGG
CT

Alignment

ORF - retro_sara_135 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.21 %
• Parental protein coverage: 53.67 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SDLDQSNVTEETPEGEEHPVA-DTENKENEVEEVKEEGPKEMTLDEWKAIQNKDRAKVEFNIRKPNEGAD
          .DLDQSNVTEETPEGEEHPV..DTEN.ENEVEEVKE.GPKEMTL.EWKA.QNKDRAKVE.NIRKPNEGAD
Retrocopy TDLDQSNVTEETPEGEEHPVE<DTENTENEVEEVKE*GPKEMTLNEWKATQNKDRAKVELNIRKPNEGAD

Parental  GQWKKGFVLHKSKSEEAHAEDSVMDHHFRKPANDITSQLEINFGDLGRPGRGGRGGRGGRGRGGRPNRGS
          GQWKKGFVLHKSKSEEAHAEDSVMDHHFRKPANDITSQLEINFGDLGRPGRGGRGGRGGR..GG.PNRGS
Retrocopy GQWKKGFVLHKSKSEEAHAEDSVMDHHFRKPANDITSQLEINFGDLGRPGRGGRGGRGGRRHGGSPNRGS

Parental  RTDKSNTSAPDVDDPEAFPALA
          RTDKSNTSAPDVDDPEAFPALA
Retrocopy RTDKSNTSAPDVDDPEAFPALA

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_135 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 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000017440	2 retrocopies	retro_cjac_1207, retro_cjac_3015,
Gorilla gorilla	ENSGGOG00000010396	1 retrocopy	retro_ggor_408,
Myotis lucifugus	ENSMLUG00000001424	1 retrocopy	retro_mluc_691,
Oryctolagus cuniculus	ENSOCUG00000008946	1 retrocopy	retro_ocun_1041,
Pongo abelii	ENSPPYG00000001256	1 retrocopy	retro_pabe_3790,
Sorex araneus	ENSSARG00000000803	1 retrocopy	retro_sara_135 ,
Tupaia belangeri	ENSTBEG00000003689	4 retrocopies	retro_tbel_1004, retro_tbel_1331, retro_tbel_2427, retro_tbel_532,