RetrogeneDB ID: retro_ttru_53

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1050:45237..45715(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MARCH2
• Ensembl ID: ENSTTRG00000009764
• Aliases: None
• Description: membrane-associated ring finger (C3HC4) 2, E3 ubiquitin protein ligase [Source:HGNC Symbol;Acc:28038]

Sequence

>retro_ttru_53
GACTGCTCCGGCAGCCCTGCCTTTTCCATGGTACTGGAGGCCAAGAGCCTCAGGCCACCCCAGTACGCGCAGGTGACTTC
AAGGGGTGGCCCGCTCCTCTCAACCGGCATCCAGGCCTTGGACGCGCCAAGAGACGGGCCCTTCTACGGCTCTGCCGGGA
CGGAGCGAAGGGAGAGAGCTTGCGGTTTCCGCAGGCTGCACCGGCCCACTGGGCCCAGTGCCCGAGAGCTGTTCAGAAAG
GTGGTTCTCCTCGTCCACCACCAGCTACTGGAGCTCTGCCACACGGTGTTTGTGGCGGAGAAGTGGCCCAGCCCCTCACA
GACGGTTTGAAGGCCCCAGGGCCTCGCACAAAGGAGCAGACGCTCTGCTGCGACCAGGAACACTTCCACCTCTTTATGCC
GCTGGCCGCCATCTTGGCTGGCAGGGCGGACGCGGGGCGGGCTACTTCCGGCTCCACCTCCGCCTCGAGGCCAGGGGC

Alignment

ORF - retro_ttru_53 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.1 %
• Parental protein coverage: 66.26 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  DCSDSPAFSKVVEATGLGPPQYVAQVTSRDGRLLSTVIRALDTPSDGPF-CRICHEGANGESLLSP-CGC
          DCS.SPAFS.V.EA..L.PPQY.AQVTSR.G.LLST.I.ALD.P.DGPF..R.C..GA.GESL..P..GC
Retrocopy DCSGSPAFSMVLEAKSLRPPQY-AQVTSRGGPLLSTGIQALDAPRDGPF<LRLCRDGAKGESLRFP<AGC

Parental  TGTLGAVHKSCLERWLSSSNTSY-CELCHTEFAVEKRP-RPLTEWLKDPGPRTEKRTLCCDMVCFLFITP
          TG.LG.V..SC.ERW.SSS.TSY..ELCHT.F..EK.P..PLT..LK.PGPRT...TLCCD...F....P
Retrocopy TGPLGPVPESCSERWFSSSTTSY<LELCHTVFVAEKWP<QPLTDGLKAPGPRTKEQTLCCDQEHFHLFMP

Parental  LAAI-SGWLCLRGAQDHLRLHSRLEAVG
          LAAI..GW...RGA....RLH.RLEA.G
Retrocopy LAAI<LGWQGGRGA-GYFRLHLRLEARG

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_53 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_53 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	ENSTTRG00000009764	1 retrocopy	retro_ttru_53 ,