RetrogeneDB ID: retro_ttru_924

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_680:183405..183655(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AP2S1
• Ensembl ID: ENSTTRG00000012548
• Aliases: None
• Description: adaptor-related protein complex 2, sigma 1 subunit [Source:HGNC Symbol;Acc:565]

Sequence

>retro_ttru_924
AACTTTAACATCATTTACTGAAACTATGCCAGTCTCTACTTCTGCATCTGAGGTGGATGTCCATGACAACAACCCGGCTA
TCTACCACTTTGTGGAGATCTTAAACAAATATTGCAACAATGTTTGTGAATTGTCTGCTTTTACGTCCAAGGTTTATTCG
GTGACAGACTTGATGTTGGTGACTAGCAAGATCTGGGAGACCAGCCAGGTGAAGGTGCCGAAACGGCGGCTGAGGCTGCA
GTCCCTGGAG

Alignment

ORF - retro_ttru_924 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.67 %
• Parental protein coverage: 97.8 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  NFKIIYRRYAGLYFCIC-VDVNDNNLAYLEAIHNFVEVLNEYFHNVCELDLVFNFYKVYTVVDEMFLAGE
          NF.IIY..YA.LYFCI..VDV.DNN.....AI..FVE.LN.Y..NVCEL.......KVY.V.D.M.....
Retrocopy NFNIIY*NYASLYFCI*>VDVHDNN----PAIYHFVEILNKYCNNVCELSAFTS--KVYSVTDLMLVTSK

Parental  IRETSQTKVLKQLLMLQSLE
          I.ETSQ.KV.K..L.LQSLE
Retrocopy IWETSQVKVPKRRLRLQSLE

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_924 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_924 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 5 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000008394	1 retrocopy	retro_amel_409,
Macropus eugenii	ENSMEUG00000001062	2 retrocopies	retro_meug_1156, retro_meug_1993,
Mus musculus	ENSMUSG00000008036	1 retrocopy	retro_mmus_2739,
Rattus norvegicus	ENSRNOG00000015865	2 retrocopies	retro_rnor_1030, retro_rnor_1516,
Tursiops truncatus	ENSTTRG00000012548	1 retrocopy	retro_ttru_924 ,