RetrogeneDB ID: retro_itri_733

Retrocopy location

• Organism: Squirrel (Ictidomys tridecemlineatus)
• Coordinates: JH393314.1:9825453..9825893(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MORN4
• Ensembl ID: ENSSTOG00000026926
• Aliases: None
• Description: MORN repeat containing 4 [Source:HGNC Symbol;Acc:24001]

Sequence

>retro_itri_733
ATGACCCTGACAAAAGGTTCTTTCACCTAGTCCAGTGGGGAGGAATATCGTGGCGAGTGGAAGGAGGGCCGCAGGCATGG
TTTTGGTCAACTGCTGTTTGCAGATGGTGGCACCTAGCTGGGTCATTTTGAGAATGGGCTCTTTAATGGCTTTGGGGTAC
TGACCTTTTCAGATGGTTCAAGGTATGAGGGGGAGTTTGCCCAGGGCAAGTTTAATAGCGTTGGAGGAGTCTTCATTCGG
CATGATAGCATGACCTTTGAGGGGGAATTTTAAAATGGCAGCATAGATGGTTTTGGCCTGCTGACTTTCCCTGATGGTTC
TCTTGGAATACCCTGCAAGGAAGGTCTATTTGAGAACAATAAGCTGCTGCAGCGGGAGAAGTGTTCCGCAGAGGTTCAGC
AGCCCAGAGTGCCTCCAAGTCCACCAGAAATCTTACTGCT

Alignment

ORF - retro_itri_733 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.84 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MTLTKGSFTYSSGEEYHGEWKEGRRHGYGQLLFADGGTYLGHFENGLFNGFGVLTFSDGSRYEGEFAQGK
          MTLTKGSFT.SSGEEY.GEWKEGRRHG.GQLLFADGGT.LGHFENGLFNGFGVLTFSDGSRYEGEFAQGK
Retrocopy MTLTKGSFT*SSGEEYRGEWKEGRRHGFGQLLFADGGT*LGHFENGLFNGFGVLTFSDGSRYEGEFAQGK

Parental  FNGV-GVFIRHDNMTFEGEFKNGRVDGFGLLTFPDGSHGIPRNEGLFENNKLLRREKCSAVVQR-AQSAS
          FN.V.GVFIRHD.MTFEGEF.NG..DGFGLLTFPDGS.GIP..EGLFENNKLL.REKCSA.VQ..AQSAS
Retrocopy FNSVGGVFIRHDSMTFEGEF*NGSIDGFGLLTFPDGSLGIPCKEGLFENNKLLQREKCSAEVQQ<AQSAS

Parental  KSARNLTA
          KS.RNLTA
Retrocopy KSTRNLTA

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_733 retrocopy.

TSS

Ictidomys tridecemlineatus was not studied using FANTOM5 data.

Lab

retro_itri_733 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 1 parental gene, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Ictidomys tridecemlineatus	ENSSTOG00000026926	2 retrocopies	retro_itri_1530, retro_itri_733 ,