RetrogeneDB ID: retro_sara_185

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: GeneScaffold_6277:7685..7936(-)
• Located in intron of: ENSSARG00000005566

Retrocopy information

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

Parental gene information

• Parental gene symbol: C1orf21
• Ensembl ID: ENSSARG00000013999
• Aliases: None
• Description: chromosome 1 open reading frame 21 [Source:HGNC Symbol;Acc:15494]

Sequence

>retro_sara_185
TCTGCCAAGCATGTAGCCTCTATTCAAAGTGAAAAACAAGCCCAGAAAGAGAAGAACTACCAGAATGGAGATGTGTTTGG
TGATGAGTATAGGATCAAACCCCTGGAAAAAGTCAAGTACATGAAAAACGGGGCAGAAGAGGAGCAGAAAGTCACCACAG
GAACCAAGAAAACTTGGAGAAAAGTGCGAGTTCAGATGTCAGACTGAAAACCAACAGATAGATCCCGGGCTTGGTACACC
AGCCTCAAGCC

Alignment

ORF - retro_sara_185 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.47 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SAKLVAAVPSE-EAQKGKKYQNGDAFGDEYRIKPVEEVKYMKNGAEEEQKVAA-RNQENLEKSASSNVRL
          SAK.VA...SE..AQK.K.YQNGD.FGDEYRIKP.E.VKYMKNGAEEEQKV...RNQENLEKSASS.VRL
Retrocopy SAKHVASIQSEKQAQKEKNYQNGDVFGDEYRIKPLEKVKYMKNGAEEEQKVTT<RNQENLEKSASSDVRL

Parental  KTSKEISGLVHQPRA
          KT...I.GLVHQP.A
Retrocopy KTNR*IPGLVHQPQA

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_185 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 5 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000013468	2 retrocopies	retro_amel_508, retro_amel_590,
Bos taurus	ENSBTAG00000038079	3 retrocopies	retro_btau_1219, retro_btau_1661, retro_btau_18,
Canis familiaris	ENSCAFG00000013460	1 retrocopy	retro_cfam_1069,
Mustela putorius furo	ENSMPUG00000011816	1 retrocopy	retro_mputfur_1583,
Sorex araneus	ENSSARG00000013999	1 retrocopy	retro_sara_185 ,