RetrogeneDB ID: retro_psin_32

Retrocopy location

• Organism: Chinese softshell turtle (Pelodiscus sinensis)
• Coordinates: JH206258.1:1550419..1550656(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSPSIG00000004692
• Aliases: None
• Description: None

Sequence

>retro_psin_32
AGCACTCCCACCGCCACCAGGACCTCCAACGACTCCTTGGTAGGGTACATCCTGGTGCCCTTCTTCCTCATCACCGTCAT
TGGCATCGTCTTGGTGGTGATGATGTATTTTCAGAAGAAGAGGAGGTTTGACAGGCTACGACACCACCTACTACCGGTGT
ACAGCCATGACCCCACAGGGGACCTGCACGAGGCTGAACAGGAACTGCTGGAAGATCCAGATGACACCAAGATGATT

Alignment

ORF - retro_psin_32 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.22 %
• Parental protein coverage: 78.22 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  TTPSSARTSSDSLVGYVLVPFFLITVVGIVVAVMMYIQKKRRFDRLRHHLLPMYSYDPAEDLHEVEQELL
          .TP...RTS.DSLVGY.LVPFFLITV.GIV..VMMY.QKKRRFDRLRHHLLP.YS.DP..DLHE.EQELL
Retrocopy STPTATRTSNDSLVGYILVPFFLITVIGIVLVVMMYFQKKRRFDRLRHHLLPVYSHDPTGDLHEAEQELL

Parental  GDPDDTKVM
          .DPDDTK..
Retrocopy EDPDDTKMI

Legend:

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

Expression

RNA-Seq

Pelodiscus sinensis was not studied using RNA-Seq expression data.

ChIP-Seq

Pelodiscus sinensis was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_psin_32 retrocopy.

TSS

Pelodiscus sinensis was not studied using FANTOM5 data.

Lab

retro_psin_32 was not experimentally validated.

Homology

Retrocopy orthology:

Pelodiscus sinensis 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 7 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000001058	1 retrocopy	retro_amel_1014,
Bos taurus	ENSBTAG00000034519	1 retrocopy	retro_btau_261,
Equus caballus	ENSECAG00000005108	3 retrocopies	retro_ecab_236, retro_ecab_474, retro_ecab_700,
Myotis lucifugus	ENSMLUG00000011876	1 retrocopy	retro_mluc_137,
Mus musculus	ENSMUSG00000062753	1 retrocopy	retro_mmus_1543,
Oryctolagus cuniculus	ENSOCUG00000013398	1 retrocopy	retro_ocun_625,
Pelodiscus sinensis	ENSPSIG00000004692	1 retrocopy	retro_psin_32 ,