RetrogeneDB ID: retro_psin_3

Retrocopy location

• Organism: Chinese softshell turtle (Pelodiscus sinensis)
• Coordinates: JH206810.1:2941419..2941995(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSPSIG00000000873
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: RAP2A
• Ensembl ID: ENSPSIG00000017641
• Aliases: None
• Description: RAP2A, member of RAS oncogene family [Source:HGNC Symbol;Acc:9861]

Sequence

>retro_psin_3
AGGAAGGAGCTGGGTGTGCGGAGCGGAGCCATGCGAGAATACAAAGTGGTGGTGCTGGGCTCGGGCGGGGTGGGCAAATC
CGCCCTCACCGTGCAGTTCGTGACGGGCTCCTTCATCGAGAAGTATGACCCCACCATCGAAGATTTCTACCGCAAGGAGA
TCGAGGTGGATTCCTCCCCCTCGGTGCTGGAGATCCTGGACACCGCCGGCACTGAGCAGTTCGCCTCCATGCGGGACCTC
TATATCAAGAACGGGCAAGGGTTCATCCTGGTCTACAGCCTGGTCAACCAGCAGAGCTTCCAGGACATCAAGCCTATGCG
GGATCAGATCATCCGGGTGAAGAGGTACGAAAAGGTGCCCATGATCCTGGTGGGCAACAAGGTGGACTTGGAGGGCGAGA
GGGAGGTGTCGTATGGGGAAGGCAAAGCTCTGGCTGAGGAGTGGAGCTGCCCCTTCATGGAAACTTCAGCCAAAAACAAA
GCTTCAGTGGACGAACTGTTTGCAGAGATTGTCAGGCAGATGAACTACGCTTCCCAGCCCAACGGGGACGATCAGTGCTG
CTCGTCCTGCGTGATC

Alignment

ORF - retro_psin_3 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.79 %
• Parental protein coverage: 99.46 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MREYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFYRKEIEVDASPSVLEILDTAGTEQFASMRDL
          MREYKVVVLGSGGVGKSALTVQFVTG.FIEKYDPTIEDFYRKEIEVD.SPSVLEILDTAGTEQFASMRDL
Retrocopy MREYKVVVLGSGGVGKSALTVQFVTGSFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDL

Parental  YIKNGQGFILVYSLVNQQSFQEEINPCRDGIKRWATYEKVPVILVGNKVDLESEREVSSNEGRALAEEWG
          YIKNGQGFILVYSLVNQQSFQ..I.P.RD.I.R...YEKVP.ILVGNKVDLE.EREVS..EG.ALAEEW.
Retrocopy YIKNGQGFILVYSLVNQQSFQ-DIKPMRDQIIRVKRYEKVPMILVGNKVDLEGEREVSYGEGKALAEEWS

Parental  CPFMETSAKSKTMVDELFAEIVRQMNYAAQPDKDDPCCSACNI
          CPFMETSAK.K..VDELFAEIVRQMNYA.QP..DD.CCS.C.I
Retrocopy CPFMETSAKNKASVDELFAEIVRQMNYASQPNGDDQCCSSCVI

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_3 retrocopy.

TSS

Pelodiscus sinensis was not studied using FANTOM5 data.

Lab

retro_psin_3 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.

---

Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Pelodiscus sinensis	ENSPSIG00000017641	1 retrocopy	retro_psin_3 ,
Drosophila melanogaster	FBgn0025806	1 retrocopy	retro_dmel_19,