RetrogeneDB ID: retro_ttru_1159

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_105850:24898..25396(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SLC25A14
• Ensembl ID: ENSTTRG00000016206
• Aliases: None
• Description: solute carrier family 25 (mitochondrial carrier, brain), member 14 [Source:HGNC Symbol;Acc:10984]

Sequence

>retro_ttru_1159
ATGTCTGCCCTGAACTGGAAGCCCTTCGTGTACGGAGGCCTGGCCTCCATCACAGCGGAGTGCGGTACTTTTCCAATTGA
TTTAACCAAGACACGGCTCCAGATTCAAGGCCAGAAGAATGATGCAAACGTTAAAGAAATCAGGTATCGAGGAATGTTGC
ATGCGTTAGTGAGGATAGGCAGAGAGGAAGGCCTGAAAGCACTGTGTTCAGGGATTGCTCCTGCGATGTCGCGCCAGGCT
TCCTACGGCACCATCAAGATAGGCGTCTACCAGAGCTTGAAGCGGTTATTTGTCGAGCGCCCGGAAGATGAAACCCTTCT
GATAAATATCGTCTGTGGAATTCTCTCTGGAGTGATATCCTCAACCATTGCTAATCCAACTGATGTTTTGAAAATTCGGA
TGCAAGCACAAAATAGCACCCTTCAAGGAGGAATGGTAGGCAACTTCATTCACATTTACCAGCAAGAGGGAACGAGAGGA
CTTTGGAAGGGCGTGTCC

Alignment

ORF - retro_ttru_1159 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.31 %
• Parental protein coverage: 50.46 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSGLNWKPFVYGGLASIVAEFGTFPVDLTKTRLQVQGQSIDVRFKEIKYRGMFHALFRIYKEEGVLALYS
          MS.LNWKPFVYGGLASI.AE.GTFP.DLTKTRLQ.QGQ..D...KEI.YRGM.HAL.RI..EEG..AL.S
Retrocopy MSALNWKPFVYGGLASITAECGTFPIDLTKTRLQIQGQKNDANVKEIRYRGMLHALVRIGREEGLKALCS

Parental  GIAPALLRQASYGTIKIGIYQSLKRLFVERLEDETLLINMICGVVSGVISSTIANPTDVLKIRMQAQGSL
          GIAPA..RQASYGTIKIG.YQSLKRLFVER.EDETLLIN..CG..SGVISSTIANPTDVLKIRMQAQ.S.
Retrocopy GIAPAMSRQASYGTIKIGVYQSLKRLFVERPEDETLLINIVCGILSGVISSTIANPTDVLKIRMQAQNST

Parental  FQGSMIGSFIDIYQQEGTRGLWRCLS
          .QG.M.G.FI.IYQQEGTRGLW...S
Retrocopy LQGGMVGNFIHIYQQEGTRGLWKGVS

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_1159 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1159 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 9 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000016263	1 retrocopy	retro_btau_1362,
Canis familiaris	ENSCAFG00000018766	1 retrocopy	retro_cfam_1359,
Callithrix jacchus	ENSCJAG00000002456	1 retrocopy	retro_cjac_2257,
Homo sapiens	ENSG00000102078	1 retrocopy	retro_hsap_2954,
Macaca mulatta	ENSMMUG00000008386	1 retrocopy	retro_mmul_1943,
Nomascus leucogenys	ENSNLEG00000015318	1 retrocopy	retro_nleu_1638,
Pongo abelii	ENSPPYG00000020715	2 retrocopies	retro_pabe_2450, retro_pabe_3595,
Pan troglodytes	ENSPTRG00000022268	1 retrocopy	retro_ptro_2048,
Tursiops truncatus	ENSTTRG00000016206	2 retrocopies	retro_ttru_1159 , retro_ttru_1570,