RetrogeneDB ID: retro_olat_27

Retrocopy location

• Organism: Medaka (Oryzias latipes)
• Coordinates: 15:28900932..28901379(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: OLA.27032
• Ensembl ID: ENSORLG00000003059
• Aliases: None
• Description: None

Sequence

>retro_olat_27
ATGGCTACTTTTTTATCAGTAAATGTCAACAAGAAGCGTGAAAATCTGTTCTTCATCCTCCGGACACACAACACAAACCC
TAAAAGTTTGGAAACTTTTGAAGAGCTCCGAAGTTTTGGGAAGAACCGTGTTGCGCAGAAATGTCAGAGCCAGCAAAGGA
GAAGGAAAACATTCCTGACGAGTCTGCAGGAGGAAAACGGATTCCAAACGGAGGGAATGCTGCGAAAACCAGGGAGGACT
TTGAGTTGGCTGCCATTTACGTGTCAGATGCTCAGTACAACAGGAACATCTACTTTGACACTTCCCCTCAAGCTGTCAGG
CTCTATCTGCTCTACCATCACTGGATCCTTAAGATGCTCCTCTACTTCTTCATCGTGCTCAACTTGTCTCTGGCCATCTT
TGAGGAGCCGGCTGTCCTCCCGCTGCCCACGTGGGCCACCATGCTCG

Alignment

ORF - retro_olat_27 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 99.33 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MATFLSVNVNKKRENLFFILRTHNTTPKSLETFEELRSFGKNRVAQKCQSQQRRRKTFLTSLQEENGFQT
          MATFLSVNVNKKRENLFFILRTHNT.PKSLETFEELRSFGKNRVAQKCQSQQRRRKTFLTSLQEENGFQT
Retrocopy MATFLSVNVNKKRENLFFILRTHNTNPKSLETFEELRSFGKNRVAQKCQSQQRRRKTFLTSLQEENGFQT

Parental  EGMLRKPGRTLSWLPFTCQMLSTTGTSTLTLPLKLSGSICSTITGSLRCSSTSSSCSTCLWPSLRSRLSS
          EGMLRKPGRTLSWLPFTCQMLSTTGTSTLTLPLKLSGSICSTITGSLRCSSTSSSCSTCLWPSLRSRLSS
Retrocopy EGMLRKPGRTLSWLPFTCQMLSTTGTSTLTLPLKLSGSICSTITGSLRCSSTSSSCSTCLWPSLRSRLSS

Parental  RCPRGPPCS
          RCPRGPPCS
Retrocopy RCPRGPPCS

Legend:

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

Expression

RNA-Seq

Oryzias latipes was not studied using RNA-Seq expression data.

ChIP-Seq

Oryzias latipes was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_olat_27 retrocopy.

TSS

Oryzias latipes was not studied using FANTOM5 data.

Lab

retro_olat_27 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_olat_27 has 0 orthologous retrocopies within teleost group .

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Oryzias latipes	ENSORLG00000003059	1 retrocopy	retro_olat_27 ,