RetrogeneDB ID: retro_sara_646

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_251997:59136..59477(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CACYBP
• Ensembl ID: ENSSARG00000010481
• Aliases: None
• Description: calcyclin binding protein [Source:HGNC Symbol;Acc:30423]

Sequence

>retro_sara_646
TCATTTAATCTTTTGATCAAGAACCTAATCGGGAAGAATCATTCTATGATGGTGAATAATATCTGAAACCCATCTCTGTG
GAAGACAGTTCCAAAAAGGTCAAGACAGATACAGTTCTGATCCTAGGTAGGAAGAAGGCCAAGAACACGCATTAGGACTA
CCTGACTCAGGCCAAGAAAGCTGAAAGAGAAAGAAAAGCCCTTCAATGATACCAAGACGATGCTAGTGAGGGACTAATGA
AATGTTCTGAAGAAAAGATATGAATACAGAGATGACATGAAGCGACCATTAATAAAGCCTAGGTAGAATCAAGAGAAAAG
CAAGCCAAAGGAGATACAAAA

Alignment

ORF - retro_sara_646 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.49 %
• Parental protein coverage: 52.02 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  SFDLLVKNLNEKNHSMVVNNL-LKPISMEGSSKKVKTDTILILCRKKAENTRWEYLTQVEK-DCKEKEKP
          SF.LL.KNL..KNHSM.VNN..LKPIS.E.SSKKVKTDT.LIL.RKKA.NT...YLTQ..K...K.K..P
Retrocopy SFNLLIKNLIGKNHSMMVNNI<LKPISVEDSSKKVKTDTVLILGRKKAKNTH*DYLTQAKK<S*KRKKSP

Parental  SY-DTET-DPSEGLM-NVLKKIYEDGDDDMKR-TINKAWVESREKQAKGDTE
          S..DT.T.D.SEGLM.NVLKK.YE...DDMKR.TINKA.VESREKQAKGDT.
Retrocopy SM<DTKT<DASEGLM>NVLKKRYE-YRDDMKR<TINKA*VESREKQAKGDTK

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_646 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 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000000170	4 retrocopies	retro_amel_1094, retro_amel_1760, retro_amel_571, retro_amel_975,
Echinops telfairi	ENSETEG00000009331	3 retrocopies	retro_etel_192, retro_etel_1921, retro_etel_766,
Macropus eugenii	ENSMEUG00000010725	5 retrocopies	retro_meug_1472, retro_meug_1517, retro_meug_1751, retro_meug_236, retro_meug_95,
Macaca mulatta	ENSMMUG00000001571	1 retrocopy	retro_mmul_175,
Otolemur garnettii	ENSOGAG00000005375	2 retrocopies	retro_ogar_2507, retro_ogar_2720,
Pongo abelii	ENSPPYG00000000486	3 retrocopies	retro_pabe_207, retro_pabe_2130, retro_pabe_520,
Sorex araneus	ENSSARG00000010481	3 retrocopies	retro_sara_646 , retro_sara_675, retro_sara_737,