RetrogeneDB ID: retro_ttru_796

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_3471:56849..57218(+)
• Located in intron of: ENSTTRG00000012019

Retrocopy information

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

Parental gene information

• Parental gene symbol: EFCAB10
• Ensembl ID: ENSTTRG00000001481
• Aliases: None
• Description: EF-hand calcium binding domain 10 [Source:HGNC Symbol;Acc:34531]

Sequence

>retro_ttru_796
ATGGAGGCCAGCAGCAGAGGCCGCATGAGGCCAGGAATCATTTCGCAAAACATCTGATCATGGAGTTGCTGAATATTTCA
CTAGTGTCCTCCTCTTTTTCCAGCTGGAAAAACCAAGAGAGAATTTAATATCTATATTGCAACGGCTGAGAATTGCCAAA
TAAGGTATGACTTTCCCGTCCATTATGTCAAATTGAGCTGTGTTTGAGGTGATGGACTCCTTGAATGAAAGCACCATATC
ACTTACGCAGTACAAAGAAGCCCTCAAAACCCTGAGTCTGTGCACCGCAGATAAAGCTTTAAAGATGATGGGCATGGAAT
AACTTCGGAAAAATTCAGGTGTCAAGTGAACAAGAGGACTCAGGAAATA

Alignment

ORF - retro_ttru_796 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 54.96 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MEAKS-SRELQARNYLEKHRIMELLT-YLTSALLFSRPEKPREYLISILEQLRTAKVSGMAFPFFMDNSN
          MEA.S..R...ARN...KH.IMELL..Y.TS.LLF...EKPRE.LISIL..LR.AK..GM.FP..M.N..
Retrocopy MEASS<QRPHEARNHFAKHLIMELLN<YFTSVLLFFQLEKPRENLISILQRLRIAK-*GMTFPSIMSN*A

Parental  ITAMFQMLDSSNKGSISFIQYKE-VKTLG-CTADE-LK-DDGH--ITVKVMLEVNKKTQEI
          ....F...DS.N...IS..QYKE..KTL..CTAD..LK.DDGH.....K....VNK.TQEI
Retrocopy V---FEVMDSLNESTISLTQYKEALKTLSLCTADKALK<DDGHGITSEKFRCQVNKRTQEI

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_796 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_796 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 4 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Mustela putorius furo	ENSMPUG00000018257	1 retrocopy	retro_mputfur_1356,
Otolemur garnettii	ENSOGAG00000000454	1 retrocopy	retro_ogar_2480,
Tupaia belangeri	ENSTBEG00000005996	4 retrocopies	retro_tbel_1203, retro_tbel_1564, retro_tbel_377, retro_tbel_378,
Tursiops truncatus	ENSTTRG00000001481	1 retrocopy	retro_ttru_796 ,