RetrogeneDB ID: retro_sara_109

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: GeneScaffold_3314:57750..58839(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSSARG00000009660
• Aliases: None
• Description: None

Sequence

>retro_sara_109
GCCGCCGGCGTCGGGGAGGCCGAGCAGGGTCAGCCCGCGCCTCCGCCGCCGCAGCCGCAGCCGCCGGACATGGCCGAGGC
CGGAGGCGCGATGGCGGCCCCCGTGGACGACGGGTTTCTGGACCTGGACTCTCCCACCTACGTCCTGTACAGAGACAGAG
CAGAATGGGCTGACATAGATCCTGTGCCGCAGAATGATGGCCCAAATCCAGTGGTCCAGATCATTTATAGTGAAAAATTT
AGAGATGTTTATGATTATTTCCGGGCTGTTCTGCAGCGTGATGAAAGAAGTGAACGTGCTTTTAAACTAACCAGAGATGC
TATTGAGTTGAACGCAGCCAATTACACGGTGTGGCATTTTCGGAGAGTTCTTCTAAAGTCGCTCCAAAAGGATCTACATG
AGGAAATGAATTACATTACTGCAATAATTGAGGAGCAACCCAAAAACTATCAAGTTTGGCATCATAGGCGTGTGTTAGTG
GAATGGCTAAAAGATCCATCCCAGGAGCTTGAATTTATTGCTGATATTCTAAACCAGGATGCAAAGAATTACCATGCCTG
GCAACATCGACAGTGGGTTATTCAGGAATTTAAACTTTGGGACAATGAGCTACAATATGTAGAGCAACTTCTCAAAGAGG
ATGTGAGAAATAACTCAGTCTGGAACCAAAGATATTTCGTGATTTCTAACACCACCGGCTATGGTGACCGTGCTGTATTG
GAGAGAGAAGTACAGTACACTCTGGAAATGATCAAACTAGTACCACATAATGAAAGTGCATGGAACTATTTGAAAGGGAT
TTTGCAGGATCTTGGTCTTTCCAAATATCCCAATTTATTAAATCAGTTACTTGATTTACAACCAAGTCACAGTTCCCCCT
ACTTAATTGCCTTTCTTGTGGATATCTATGAAGACATGCTAGAAAACCAATGTGACAACAAAGAGGACATTCTTAATAAA
GCCCTAGAGTTATGTGAAATTCTAGCAAAAGAAAAGGATACTGTAAGAAAGGAATATTGGAGATATATTGGAAGATCCCT
TCAAAGCAAACACAGCACAGAAAACGAACCTCCAGCAAATGTACAGCAA

Alignment

ORF - retro_sara_109 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 99.45 %
• Parental protein coverage: 99.18 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AAGVGEAEQGQPAPPPPQPQPPDMAEAGGAMAAPVDDGFLDLDSPTYVLYRDRAEWADIDPVPQNDGPNP
          AAGVGEAEQGQPAPPPPQPQPPDMAEAGGAMAAPVDDGFLDLDSPTYVLYRDRAEWADIDPVPQNDGPNP
Retrocopy AAGVGEAEQGQPAPPPPQPQPPDMAEAGGAMAAPVDDGFLDLDSPTYVLYRDRAEWADIDPVPQNDGPNP

Parental  VVQIIYSEKFRDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYIT
          VVQIIYSEKFRDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYIT
Retrocopy VVQIIYSEKFRDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYIT

Parental  AIIEEQPKNYQVWHHRRVLVEWLKDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVEQL
          AIIEEQPKNYQVWHHRRVLVEWLKDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVEQL
Retrocopy AIIEEQPKNYQVWHHRRVLVEWLKDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVEQL

Parental  LKEDVRNNSVWNQRYFVISNTTGYGDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDLGLS-YPNLL
          LKEDVRNNSVWNQRYFVISNTTGYGDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDLGLS.YPNLL
Retrocopy LKEDVRNNSVWNQRYFVISNTTGYGDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDLGLSKYPNLL

Parental  NQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKEDILNKALELCEILAKEKDTIRKEYWRYIGRSLQSK
          NQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKEDILNKALELCEILAKEKDT.RKEYWRYIGRSLQSK
Retrocopy NQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKEDILNKALELCEILAKEKDTVRKEYWRYIGRSLQSK

Parental  HSTENEPPANVQQ
          HSTENEPPANVQQ
Retrocopy HSTENEPPANVQQ

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_109 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
Erinaceus europaeus	ENSEEUG00000008272	1 retrocopy	retro_eeur_532,
Homo sapiens	ENSG00000168522	1 retrocopy	retro_hsap_805,
Loxodonta africana	ENSLAFG00000000631	1 retrocopy	retro_lafr_506,
Monodelphis domestica	ENSMODG00000010003	1 retrocopy	retro_mdom_1656,
Nomascus leucogenys	ENSNLEG00000012979	1 retrocopy	retro_nleu_2408,
Sorex araneus	ENSSARG00000009660	1 retrocopy	retro_sara_109 ,
Ictidomys tridecemlineatus	ENSSTOG00000011626	1 retrocopy	retro_itri_1221,