RetrogeneDB ID: retro_hsap_1414

Retrocopy location

• Organism: Human (Homo sapiens)
• Coordinates: 14:53265621..53265779(-)
• Located in intron of: ENSG00000258698

Retrocopy information

• Ensembl ID: ENSG00000258802
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: MYEOV2
• Ensembl ID: ENSG00000172428
• Aliases: None
• Description: myeloma overexpressed 2 [Source:HGNC Symbol;Acc:21314]

Sequence

>retro_hsap_1414
GCCGTGGATGAGATGTTTCCAAGGGCGCCGGGCCCTACGTGGACCTGGACGAGGCGGGAGGCAGCACCAGGTTCTTGATG
GACTTGGCAACTAATGAAAAGGCTGTTCATGTAGACTTTTTAAATGGTTTTGAAGATCTCTTTGATGATGATGACATC

Alignment

ORF - retro_hsap_1414 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.19 %
• Parental protein coverage: 92.98 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  AVDEMFP-EGAGPYVDLDEAGGSTGLLMDLAANEKAVHADFFNDFEDLFDDDDI
          AVDEMFP..GAGPYVDLDEAGGST..LMDLA.NEKAVH.DF.N.FEDLFDDDDI
Retrocopy AVDEMFP<KGAGPYVDLDEAGGSTRFLMDLATNEKAVHVDFLNGFEDLFDDDDI

Legend:

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

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
bodymap2_adipose	0.00 RPM	12.86 RPM
bodymap2_adrenal	0.00 RPM	19.90 RPM
bodymap2_brain	0.02 RPM	28.13 RPM
bodymap2_breast	0.00 RPM	21.58 RPM
bodymap2_colon	0.00 RPM	20.82 RPM
bodymap2_heart	0.00 RPM	24.98 RPM
bodymap2_kidney	0.00 RPM	24.28 RPM
bodymap2_liver	0.00 RPM	12.46 RPM
bodymap2_lung	0.12 RPM	19.13 RPM
bodymap2_lymph_node	0.00 RPM	31.70 RPM
bodymap2_ovary	0.04 RPM	15.27 RPM
bodymap2_prostate	0.00 RPM	34.42 RPM
bodymap2_skeletal_muscle	0.00 RPM	12.09 RPM
bodymap2_testis	0.02 RPM	28.28 RPM
bodymap2_thyroid	0.00 RPM	19.53 RPM
bodymap2_white_blood_cells	0.00 RPM	22.27 RPM

ChIP-Seq

RNA Polymerase II activity near the 5' end of retro_hsap_1414 was not detected

EST

No EST(s) were mapped for retro_hsap_1414 retrocopy.

TSS

No TSS is located nearby retro_hsap_1414 retrocopy 5' end.

Lab

retro_hsap_1414 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_hsap_1414 has 0 orthologous retrocopies within eutheria group .

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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,