RetrogeneDB ID: retro_ttru_254

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1700:172295..172531(+)
• Located in intron of: ENSTTRG00000006578

Retrocopy information

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

Parental gene information

• Parental gene symbol: BOLA3
• Ensembl ID: ENSTTRG00000006698
• Aliases: None
• Description: bolA homolog 3 (E. coli) [Source:HGNC Symbol;Acc:24415]

Sequence

>retro_ttru_254
CTTCTCTTCTGTGCTCAGCGCATGTTTGCCTCGCAGACTGAGGGGGAGCTCAAAGTGACCCAAATTCCTCAAGAAAAGTT
TCCTCAGCTACAGCTATCAAATTCCCTGACATTTCAGGAGGTTGTGGGGCAATGTATGAAATTCAAATTGAATTGGAAGA
ACTTAAGGAGAAGAGAACGGTCCAACAGCATCAGATGGTAAATCAGGCATTAAAAGAAGAAATCAAAGGTATGCAC

Alignment

ORF - retro_ttru_254 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.25 %
• Parental protein coverage: 71.56 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LLHCAQRMFASQTEGELKVTQILKEK-PQ-ATAIKVTDIXXGCGAMYEIQIESEEFKEKRTVQQHQMVNQ
          LL.CAQRMFASQTEGELKVTQI..EK.PQ.ATAIK..DI..GCGAMYEIQIE.EE.KEKRTVQQHQMVNQ
Retrocopy LLFCAQRMFASQTEGELKVTQIPQEKFPQ<ATAIKFPDISGGCGAMYEIQIELEELKEKRTVQQHQMVNQ

Parental  ALKEEIKGMH
          ALKEEIKGMH
Retrocopy ALKEEIKGMH

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_254 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_254 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 11 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000008739	1 retrocopy	retro_cfam_1574,
Callithrix jacchus	ENSCJAG00000017844	1 retrocopy	retro_cjac_1112,
Dasypus novemcinctus	ENSDNOG00000008309	2 retrocopies	retro_dnov_2474, retro_dnov_510,
Myotis lucifugus	ENSMLUG00000016364	1 retrocopy	retro_mluc_1407,
Mustela putorius furo	ENSMPUG00000007813	1 retrocopy	retro_mputfur_1519,
Mus musculus	ENSMUSG00000045160	1 retrocopy	retro_mmus_1648,
Oryctolagus cuniculus	ENSOCUG00000016658	1 retrocopy	retro_ocun_51,
Otolemur garnettii	ENSOGAG00000003502	1 retrocopy	retro_ogar_1839,
Sorex araneus	ENSSARG00000001754	1 retrocopy	retro_sara_83,
Sus scrofa	ENSSSCG00000008291	1 retrocopy	retro_sscr_750,
Tursiops truncatus	ENSTTRG00000006698	3 retrocopies	retro_ttru_1149, retro_ttru_1493, retro_ttru_254 ,