RetrogeneDB ID: retro_sara_766

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_95321:325..697(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MITD1
• Ensembl ID: ENSSARG00000000765
• Aliases: None
• Description: MIT, microtubule interacting and transport, domain containing 1 [Source:HGNC Symbol;Acc:25207]

Sequence

>retro_sara_766
AAGAGTGCAACAGGTTTCAGTTATGAGTCACTTTTTCAAGAATACCTTAATGAAATGGCTACAGAAGTTTGGATAGAAGA
TCCTTATATTTGACAGTCACATTAACCATAAAACTTTCTTCGATTTTGTGAGATGCTTATTAAGAAACCATGTAAAGTAA
AAACTATCCATCTTCTCACATCTCTGGCTGTAGGCAATGAGAGAATGCAGCAGAGTGGCCTGGAAGAAATAAAAGAATCA
CTCCGTAAGTATGGAGTGCTATTGGAATTAGAATACTCCTCTTCAATACATGACCGAGAAATTAGGTTCAACAATGGATG
GATAATTAAGATTGGAAGGGGACTTGATTATTTTAAGAAGCCCCAGATTCAG

Alignment

ORF - retro_sara_766 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.94 %
• Parental protein coverage: 51.03 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ENATGFSYESLFQEYLNETVTEVWVEDPYIRQSHQLYNFLRFCEMLIKKPCKVKTIHLLTSLAVGNERMQ
          ..ATGFSYESLFQEYLNE..TEVW.EDPYI.QSH...NFLRFCEMLIKKPCKVKTIHLLTSLAVGNERMQ
Retrocopy KSATGFSYESLFQEYLNEMATEVWIEDPYI*QSH*P*NFLRFCEMLIKKPCKVKTIHLLTSLAVGNERMQ

Parental  QSGLEEIKESLRKYGVLLELEYSSSIHDREIRFNNGWIIKIGRGLDYFKKPQGQ
          QSGLEEIKESLRKYGVLLELEYSSSIHDREIRFNNGWIIKIGRGLDYFKKPQ.Q
Retrocopy QSGLEEIKESLRKYGVLLELEYSSSIHDREIRFNNGWIIKIGRGLDYFKKPQIQ

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_766 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000010970	1 retrocopy	retro_cpor_196,
Otolemur garnettii	ENSOGAG00000002240	1 retrocopy	retro_ogar_883,
Sorex araneus	ENSSARG00000000765	1 retrocopy	retro_sara_766 ,