RetrogeneDB ID: retro_ttru_611

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_2902:84228..84906(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZC2HC1A
• Ensembl ID: ENSTTRG00000000916
• Aliases: None
• Description: zinc finger, C2HC-type containing 1A [Source:HGNC Symbol;Acc:24277]

Sequence

>retro_ttru_611
AATGGAAGTGTCCAAGTTGGAGAACTGTTACCTTGCAAGATTTGTGGAAGGGCATCCTTTCCAGTGGCATTAAAAAAAAC
ATGGACCTATTTGCCAGAAAACTGCCGCTAAAAAACAGAAGACTTTTGATTCAAACAGACAAAGAGCTGAAGGGACGGAT
ATTCCAACAGTAAAGCCTCTTAAACCCAGGCCTGAACCACCAAAGGAGCCATCTAATTGGAGAAGAAAGCATGAAGAGTT
CATTGCCACCATAAGAGCAGCTAAAGGCCTCGGTCAGGCCCTTAAAGAGGGTGGCAAACTTCCTCCCCTCCTCCACCTTT
TTATGATCCTGATTACATTCAGTGTCCATATTGCCAGAGGAGATTTCATGAAAATGCAGCTGATAGACATATAAATTTCT
GTAAAGAACAGGCAGTGCATATTAGTAATACAGGCAAATTTTCTACTGATACCAAGGGAAACTCGACTTCTCGGACACAG
TGTAAGGCACCTGCACTTAAAAAGTCCAGTTCTCTAACCGCCTCATCAGGATCTTCACGATTACCACAGCCAAGTGGCAC
TAGCAAAACGGTTGTAGGTGTTGCTTCGGGTAAAGTGTCTTCAGTTAGCAGCTCTTTGGGAAACAAACTTCGGACCTTGT
CTTCCTCCCATAAAGGGATAGCAGCCCCTCGCGTAGGT

Alignment

ORF - retro_ttru_611 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.96 %
• Parental protein coverage: 86.69 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  NGSVQVGELLPCRICGRTFFPVALKK-HGPICQKTASKKRKTFDSSRQRAEGTDIPTVKPLKPRPEPPKK
          NGSVQVGELLPC.ICGR..FPVA....HGPICQKTA.KK.KTFDS.RQRAEGTDIPTVKPLKPRPEPPK.
Retrocopy NGSVQVGELLPCKICGRASFPVAXXX>HGPICQKTAAKKQKTFDSNRQRAEGTDIPTVKPLKPRPEPPKE

Parental  PSNWRRKHEEFIATIRAAKGLGQALKEGGKLPP-PPPPSYDPDYIQCPYCQRRFNENAADRHINFCKEQA
          PSNWRRKHEEFIATIRAAKGLGQALKEGGKLPP.PPPP.YDPDYIQCPYCQRRF.ENAADRHINFCKEQA
Retrocopy PSNWRRKHEEFIATIRAAKGLGQALKEGGKLPP<PPPPFYDPDYIQCPYCQRRFHENAADRHINFCKEQA

Parental  ARISNKGKFSTDTKGKSTSRTQVYKPPALKKSSSPGATSSGSSRLPQPSGTSKTVVGVPSGKVSSVSSSL
          ..ISN.GKFSTDTKG.STSRTQ..K.PALKKSSS..A.SSGSSRLPQPSGTSKTVVGV.SGKVSSVSSSL
Retrocopy VHISNTGKFSTDTKGNSTSRTQC-KAPALKKSSSLTA-SSGSSRLPQPSGTSKTVVGVASGKVSSVSSSL

Parental  GSKLQTLSPSHKGIAVPHVG
          G.KL.TLS.SHKGIA.P.VG
Retrocopy GNKLRTLSSSHKGIAAPRVG

Legend:

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

Expression

RNA-Seq

Tursiops truncatus was not studied using RNA-Seq expression data.

ChIP-Seq

Tursiops truncatus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ttru_611 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_611 was not experimentally validated.

Homology

Retrocopy orthology:

Tursiops truncatus 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
Tursiops truncatus	ENSTTRG00000000916	1 retrocopy	retro_ttru_611 ,