RetrogeneDB ID: retro_itri_718

Retrocopy location

• Organism: Squirrel (Ictidomys tridecemlineatus)
• Coordinates: JH393313.1:13241376..13241546(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSSTOG00000024985
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: MYEOV2
• Ensembl ID: ENSSTOG00000000776
• Aliases: None
• Description: myeloma overexpressed 2 [Source:HGNC Symbol;Acc:21314]

Sequence

>retro_itri_718
ATGAAGCCGGCAGTGGATGAGATGTTCCCGAGGGCGCCGGTCCCTACGTGGATCTGGACGAGGCAGGAGGCAGCACTGGA
CTCCTGATGGACTTGGCAGCCAATGAGAAAGCAGTCCATGCAGACTTCTTTAATGATTTTGAAGATCTCTTTGATGACGA
TGATGTCCAG

Alignment

ORF - retro_itri_718 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.28 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MKPAVDEMF-PEGAGPYVDLDEAGGSTGLLMDLAANEKAVHADFFNDFEDLFDDDDVQ
          MKPAVDEMF.PEGAGPYVDLDEAGGSTGLLMDLAANEKAVHADFFNDFEDLFDDDDVQ
Retrocopy MKPAVDEMF<PEGAGPYVDLDEAGGSTGLLMDLAANEKAVHADFFNDFEDLFDDDDVQ

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Ictidomys tridecemlineatus was not studied using RNA-Seq expression data.

ChIP-Seq

Ictidomys tridecemlineatus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_itri_718 retrocopy.

TSS

Ictidomys tridecemlineatus was not studied using FANTOM5 data.

Lab

retro_itri_718 was not experimentally validated.

Homology

Retrocopy orthology:

Ictidomys tridecemlineatus 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 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000172428	1 retrocopy	retro_hsap_1414,
Macaca mulatta	ENSMMUG00000011336	2 retrocopies	retro_mmul_166, retro_mmul_931,
Monodelphis domestica	ENSMODG00000013501	1 retrocopy	retro_mdom_559,
Mus musculus	ENSMUSG00000073616	1 retrocopy	retro_mmus_3582,
Ictidomys tridecemlineatus	ENSSTOG00000000776	1 retrocopy	retro_itri_718 ,