RetrogeneDB ID: retro_sara_7

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_211435:5194..6799(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSSARG00000011794
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSSARG00000010539
• Aliases: None
• Description: None

Sequence

>retro_sara_7
ATGCCCGAGAACGTGGCTCCCCGGAGCGGGGCGCCGGCCGGGAGTGCCGGCGGCCGCGGAAAAAGCGCCTATCAGGACCG
GGATAAGCCGGCCCAGATCCGCTTCAGCAACATCTCCGCGGCCAAAGCTGTTGCTGATGCTATTAGAACAAGCCTTGGAC
CAAAGGGGATGGATAAAATGATTCAGGATGGAAAAGGTGATGTGACCATTACAAATGATGGTGCCACCATTCTGAAACAA
ATGCAAGTGTTACACCCAGCAGCTCGGATGTTGGTGGAGCTATCTAAGGCTCAAGATATAGAAGCAGGAGATGGCACCAC
ATCGGTGGTCATCATTGCTGGCTCTCTCCTAGATTCTTGTACCAAGCTTCTTCAGAAAGGGATTCATCCAACCATCATAT
CTGAGTCATTCCAGAAGGCTTTGGAAAAGGGTCTTGAAATTTTGAATGATATGTCTCGACCTGTGGAACTGAGTGACAGA
GAAACCTTATTAAACAGCGCAACCACTTCGTTAAATTCAAAGGTTGTCTCTCAGTATTCAAGTCTGCTTTCTCCAATGAG
TGTAAATGCAGTGATGAAAGTGATTGATCCAGCCACTGCTACGAGTGTAGATCTTAGAGATATTAAAATAGTTAAAAAGC
TTGGTGGAACTATTGATGATTGTGAGTTGGTAGAAGGACTGGTTCTCACTCAAAAGGTGGCAAATTCTGGTATAACCAGA
GTTGAAAAAGCTAAAATTGGGCTTATTCAGTTTTGCTTATCTGCTCCCAAAACAGATATGGATAATCAAATAGTAGTGTC
TGACTATGTTCAGATGGATCGCGTACTTAGAGAGGAGAGAGCCTATATTCTAAACTTAGTAAAACAAATTAAGAAAGCCG
GATGTAATGTTCTTCTCATACAGAAGTCTATTCTAAGGGATGCTCTTAGTGATCTTGCATTACATTTCCTGACCAAAATG
AAGATTATGGTAGTTAAGGATATTGAGAGAGAAGACATTGAATTCATTTGTAAGACAATTGGAACTATACCAGTTGCTCA
TATTGATCAGTTCACTCCTGATATGTTGGGATCAGCTGAGTTAGCTGAAGAAGTTAATTTAAATGGGGCTGGCAAACTGC
TCAAGATTACAGGTTGTACAAGCCCTGGCAAAACCGTTACAATTGTTGTTCGAGGATCTAACAAGTTGGTGATAGAAGAA
GCTGAGCGCTCCATTCATGATGCCCTGTGTGTTATTCGCTGTTTAGTAAAAAAGAGAGCTCTTATTGCAGGAGGTGGTGC
TCCAGAAATAGAGCTGGCCCTACGGTTAACTGAATATTCAAGAACGTTGAGTGGTATGGAATCCTACTGCGTTCGTGCTT
TTGCAGATGCTCTGGAGGTCATTCCATCTACTCTAGCTGAAAATGCTGGCCTGAATCCCATTTCAACAGTAACAGAACTA
AGAAACCGGCATTCCCAAGGAGAAAAAACTTCAGGCATTAATGTTCGAAAGGGTGGTATTTCCAACATTTTGGAGGAACT
GGTTGTCCAGCCCCTGTTGGTTTCAGTCAGTGCACTGACTCTGGCAACTGAAACTGTCCGAAGCATTCTGAAAATTGATG
ATGTG

Alignment

ORF - retro_sara_7 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 99.75 %
• Parental protein coverage: 75.46 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LVELSKAQDIEAGDGTTSVVIIAGSLLDSCTKLLQKGIHPTIISESFQKALEKGLEILNDMSRPVELSDR
          LVELSKAQDIEAGDGTTSVVIIAGSLLDSCTKLLQKGIHPTIISESFQKALEKGLEILNDMSRPVELSDR
Retrocopy LVELSKAQDIEAGDGTTSVVIIAGSLLDSCTKLLQKGIHPTIISESFQKALEKGLEILNDMSRPVELSDR

Parental  ETLLNSATTSLNSKVVSQYSSLLSPMSVNAVMKVIDPATATSVDLRDIKIVKKLGGTIDDCELVEGLVLT
          ETLLNSATTSLNSKVVSQYSSLLSPMSVNAVMKVIDPATATSVDLRDIKIVKKLGGTIDDCELVEGLVLT
Retrocopy ETLLNSATTSLNSKVVSQYSSLLSPMSVNAVMKVIDPATATSVDLRDIKIVKKLGGTIDDCELVEGLVLT

Parental  QKVANSGITRVEKAKIGLIQFCLSAPKTDMDNQIVVSDYVQMDRVLREERAYILNLVKQIKKAGCNVLLI
          QKVANSGITRVEKAKIGLIQFCLSAPKTDMDNQIVVSDYVQMDRVLREERAYILNLVKQIKKAGCNVLLI
Retrocopy QKVANSGITRVEKAKIGLIQFCLSAPKTDMDNQIVVSDYVQMDRVLREERAYILNLVKQIKKAGCNVLLI

Parental  QKSILRDALSDLALHFLTKMKIMVVKDIEREDIEFIC-TIGTIPVAHIDQFTPDMLGSAELAEEVNLNGA
          QKSILRDALSDLALHFLTKMKIMVVKDIEREDIEFIC.TIGTIPVAHIDQFTPDMLGSAELAEEVNLNGA
Retrocopy QKSILRDALSDLALHFLTKMKIMVVKDIEREDIEFICKTIGTIPVAHIDQFTPDMLGSAELAEEVNLNGA

Parental  GKLLKITGCTSPGKTVTIVVRGSNKLVIEEAERSIHDALCVIRCLVKKRALIAGGGAPEIELALRLTEYS
          GKLLKITGCTSPGKTVTIVVRGSNKLVIEEAERSIHDALCVIRCLVKKRALIAGGGAPEIELALRLTEYS
Retrocopy GKLLKITGCTSPGKTVTIVVRGSNKLVIEEAERSIHDALCVIRCLVKKRALIAGGGAPEIELALRLTEYS

Parental  RTLSGMESYCVRAFADALEVIPSTLAENAGLNPISTVTELRNRHSQGEKTSGINVRK
          RTLSGMESYCVRAFADALEVIPSTLAENAGLNPISTVTELRNRHSQGEKTSGINVRK
Retrocopy RTLSGMESYCVRAFADALEVIPSTLAENAGLNPISTVTELRNRHSQGEKTSGINVRK

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_7 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 8 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000003083	2 retrocopies	retro_cfam_2093, retro_cfam_590,
Callithrix jacchus	ENSCJAG00000008703	1 retrocopy	retro_cjac_724,
Equus caballus	ENSECAG00000016982	1 retrocopy	retro_ecab_148,
Microcebus murinus	ENSMICG00000015263	1 retrocopy	retro_mmur_344,
Macaca mulatta	ENSMMUG00000013973	1 retrocopy	retro_mmul_2500,
Monodelphis domestica	ENSMODG00000002882	1 retrocopy	retro_mdom_1402,
Otolemur garnettii	ENSOGAG00000003974	2 retrocopies	retro_ogar_1041, retro_ogar_1931,
Sorex araneus	ENSSARG00000010539	1 retrocopy	retro_sara_7 ,