RetrogeneDB ID: retro_psin_38

Retrocopy location

• Organism: Chinese softshell turtle (Pelodiscus sinensis)
• Coordinates: JH206904.1:45398..46058(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSPSIG00000015400
• Aliases: None
• Description: None

Sequence

>retro_psin_38
ATGCCCGTGGAAGGTGTTTCTCTTTATTCCCCAGCAAGTTTTTGTGACTCCCAAGGTTTGGAAAAATCAAAGAGTCACAT
TGTGATACCGGATGCGAGTGTTTGCCATGTGGAGGTCAAAGTCCAGAGGGGCTCCCCAGGGCCGGTGGTGTTTAGTAGGA
GTGGGCAACAGGTGTGGAAAGTATTAATAGGACCAAACGCACGGCCAAGGCCAGGGACATAGGTTCTCGGTCCATGTCCT
TTTCACCCTCAGGGTCCACCCCGCTTTGAAGCCTTTCTTCCATTGTCATGTGTCTCATCTCTTCACTCTGCCCCCTGCTG
TGTGTTCCAGGTTGACCTGCATCCCACAGAGATGACTTTCTCCAGCATGTGCTATCCAGAATGCGGGGTGGCCCGGCCCA
GCCCCATCTCCGTCAGCTGCAACGAGCCGTGCGTTCGGCAGTGCCCCGATTCTCACGTGACGATCATACCCACCCCAGTT
GACGTGACTCTCCCAGGACCAATTCTCGAGACTCACCCTCAGCAGAGCACGGTGGGAGCCGTAGAAGATCCAGCGCTCGG
AGTCGGCTATGGGAGCTCACTGGGTTTGGGGGGACTGGGTGACAATGGAGGATTTTATGGTTTAAGGAAATTTGGGGGAT
TCGGAGGTTACCTAGGAGGT

Alignment

ORF - retro_psin_38 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.27 %
• Parental protein coverage: 78.57 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MPVEGVSLYSPASFGDSQGLEKSKSHIVIPDASVCHVEVKVQRGSLGPVVCSGSGQQVWKVFIGPNARPG
          MPVEGVSLYSPASF.DSQGLEKSKSHIVIPDASVCHVEVKVQRGS.GPVV.S.SGQQVWKV.IGPNARP.
Retrocopy MPVEGVSLYSPASFCDSQGLEKSKSHIVIPDASVCHVEVKVQRGSPGPVVFSRSGQQVWKVLIGPNARPR

Parental  PGTQVLCPPSFRSQGPPPFEAFLTLSCVASLHSTPCCVFQVDLHPTEMTFSSMCYPECGVARPSPISVSC
          PGT.VL.P..F..QGPP.FEAFL.LSCV.SLHS.PCCVFQVDLHPTEMTFSSMCYPECGVARPSPISVSC
Retrocopy PGT*VLGPCPFHPQGPPRFEAFLPLSCVSSLHSAPCCVFQVDLHPTEMTFSSMCYPECGVARPSPISVSC

Parental  NEPCVRQCPDSHVTIIPTPVDVTLPGPILETHPQQSTVGAVEDPALGVGYGSSLGLGGLGDNGGFYGLRK
          NEPCVRQCPDSHVTIIPTPVDVTLPGPILETHPQQSTVGAVEDPALGVGYGSSLGLGGLGDNGGFYGLRK
Retrocopy NEPCVRQCPDSHVTIIPTPVDVTLPGPILETHPQQSTVGAVEDPALGVGYGSSLGLGGLGDNGGFYGLRK

Parental  FGGFRGYLGG
          FGGF.GYLGG
Retrocopy FGGFGGYLGG

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_38 retrocopy.

TSS

Pelodiscus sinensis was not studied using FANTOM5 data.

Lab

retro_psin_38 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Pelodiscus sinensis	ENSPSIG00000015400	1 retrocopy	retro_psin_38 ,