RetrogeneDB ID: retro_psin_15

Retrocopy location

• Organism: Chinese softshell turtle (Pelodiscus sinensis)
• Coordinates: JH211949.1:115612..116833(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSPSIG00000000305
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSPSIG00000016757
• Aliases: None
• Description: None

Sequence

>retro_psin_15
ATGGAAGTGCAGGCGACTTTTGTGGGAAGAGCTGAAGGGAATGTTTCCCAGTGCTTGGAACAGGGAGAGGCCTGGGGAAA
CTGGCACAGGTCGGAGACGCTGCTGGGAAACCTCCCATGTGAACAAATGGATGAACCTGTTAAATGCGGGGAAGGACACA
AGGATCCCGCAGCCCAGCAGACAAACTCCAAGGAAGAGAAACTCTACCACTGCCTTCAGGATGGGAAAGGCATCATTCTG
AGATCGTACCTTGTGACACCCCAGACAATCCACACTGGAGACAGAGTCCTTCGTTGCTTGGACCTAGGGGAAAGCACGAA
TGACCACTCAGGGTTCAATAACCATGGGAGAAGCCACACGGAAGAGAAACCAATTCAGTGCCTTGAGTGCGGGAACTGTT
TGAATTGGAAGCTTGTGCTAGATCCACATCAGATGAGCCACACCGGAGAGAGATCGTGTAAGTGCTTGGACTGTCAGAAA
AATGTCAGAAACAGAGCACCCCTTCTGAAACATCCGGCAGTCCTCCCAGGAGAGAGACCCCACAAGTGCATAGACTGCGG
AAAGAGTTTCATATGGAGGTCAGAGCTTGTTAAACATCAGAAAATCCACACTGGAGAGAGACCCCATCAGTGTTTAAACT
GTGGAAAATGTTTTATTCGGAAGTCACACCTTGTAGCCCATCAGGCCATCCACACAGGAGTGAGACCCCATAAGTGCTTG
GTCTGTGGAAGAAGTTTCATAAGGAGGTCTGAGCTTGCTAAACATCAGGCCATCCACACAGGAGAGAGACCCCATAAGTG
CTTGGACTGTGGGAAAAGTTTCATACGGAGGATCGACCTTGTTGAACATCAGACATTCCACACAGGAGAGAGATCTCATA
AGTGCATGGACTGTGGGAAATCCTTCAAAAGGAGATCAAGTCTTCTTAAACATCAGGCCGTCCACACAGGAAAGAGACCC
CATAAGTGCTTGGACTGTGGAAAGACTTTCCTGTGGAGGTCAGACCTTGTTCAGCACCAGGCATTCCATACAGGAGAGAG
CCCCCATAAGTGTTTGGACTGTGGGAAAAGTTTCACACGGAGGTCTAACCTTGTTATTCATAGGGCAAGTCACACAGGAG
AGAGACCCCATAAATGCTTACATTGTGGGAAATGTTTCATTCGGAAGTCCCACCTTCTAAGACATGAAGTAACCCACACA
GGAGAGAGACCTCACAAGTAA

Alignment

ORF - retro_psin_15 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.39 %
• Parental protein coverage: 74.63 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MEPQAAFVGRAEGNVSQCLEQGEVRGNWHRSERLLGNHTSEEMDESVNPAD---KPQAAHGGNRPHKCLD
          ME.QA.FVGRAEGNVSQCLEQGE..GNWHRSE.LLGN...E.MDE.V........P.A........K...
Retrocopy MEVQATFVGRAEGNVSQCLEQGEAWGNWHRSETLLGNLPCEQMDEPVKCGEGHKDPAAQQTNSKEEKLYH

Parental  C---GKSFKCKSTLVAHQAIHTGEKPHQCLICGKNFTQRSSLVVHLKIHTGERPHKCLDCGKSYIQRSDL
          C...GK.....S.LV..Q.IHTG.....CL..G......S....H...HT.E.P..CL.CG........L
Retrocopy CLQDGKGIILRSYLVTPQTIHTGDRVLRCLDLGESTNDHSGFNNHGRSHTEEKPIQCLECGNCLNWKLVL

Parental  VKHRAMHTGERSHKCLECGKSFTGRSNLLSHQAIHTGERPHKCLYCGKDFIWKTSLVAHQKIHTAERPHK
          ..H...HTGERS.KCL.C.K....R..LL.H.A...GERPHKC..CGK.FIW...LV.HQKIHT.ERPH.
Retrocopy DPHQMSHTGERSCKCLDCQKNVRNRAPLLKHPAVLPGERPHKCIDCGKSFIWRSELVKHQKIHTGERPHQ

Parental  CLECGKTFKRRFDFVKHQAIHTEDRPYKCSDCGKSFIRRSDLVNHQPIHTGERPHRCFHCGKSFTHRSNL
          CL.CGK.F.R....V.HQAIHT..RP.KC..CG.SFIRRS.L..HQ.IHTGERPH.C..CGKSF..R..L
Retrocopy CLNCGKCFIRKSHLVAHQAIHTGVRPHKCLVCGRSFIRRSELAKHQAIHTGERPHKCLDCGKSFIRRIDL

Parental  TQHLATHTGERPHQCLICGKSFTQRSALVLHQKVHTGERPHKCLDCGKSFKRKPELIQHQGIHTGERPHK
          ..H...HTGER.H.C..CGKSF..RS.L..HQ.VHTG.RPHKCLDCGK.F.....L.QHQ..HTGE.PHK
Retrocopy VEHQTFHTGERSHKCMDCGKSFKRRSSLLKHQAVHTGKRPHKCLDCGKTFLWRSDLVQHQAFHTGESPHK

Parental  CLDCGKSFTQRAALFTHQPIHTGERPHKCLDCGKSFKWKSGLVSHQKIHTGERPHQ
          CLDCGKSFT.R..L..H...HTGERPHKCL.CGK.F..KS.L..H...HTGERPH.
Retrocopy CLDCGKSFTRRSNLVIHRASHTGERPHKCLHCGKCFIRKSHLLRHEVTHTGERPHK

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_15 retrocopy.

TSS

Pelodiscus sinensis was not studied using FANTOM5 data.

Lab

retro_psin_15 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	ENSPSIG00000016757	1 retrocopy	retro_psin_15 ,