RetrogeneDB ID: retro_ttru_1041

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_100818:17899..18247(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FKBP3
• Ensembl ID: ENSTTRG00000006664
• Aliases: None
• Description: FK506 binding protein 3, 25kDa [Source:HGNC Symbol;Acc:3719]

Sequence

>retro_ttru_1041
CCAAAATATACAAAATCTGTTCTTAAAAAAGGAGATAAAACCAACTTTCCCAAAAAGGGAGATATTGTTCACTGCTGGTA
TACAGGAACACTACAGGATTGGACTGTTTTTGATACTAATTTTGAAACGACTTCAAAGAAGAAGAAAAATGCCAAGCTGT
TAAGTTTTAAGGTTGGGATAGACAAAGTTATCAGAGGATGGAATGAAGCACTCTTGGCTGTGAGTAAAGTAGAAAAGGCT
CGACTGGAGATTGAACCAGAATGGGCTTATGGAAAGAGAGGACAGCTTGATGCCAAAATTCCACCAAATGCAAAACTTAT
TTTTGAAGTGGAATTAGTGGATATTGAC

Alignment

ORF - retro_ttru_1041 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.66 %
• Parental protein coverage: 51.79 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PKYTKSVLKKGDKTNFPKKGDIVHCWYTGTLQDGTVFDTNIQTSSKKKKNAKPLSFKVGIGKVIRGWDEA
          PKYTKSVLKKGDKTNFPKKGDIVHCWYTGTLQD.TVFDTN..T.SKKKKNAK.LSFKVGI.KVIRGW.EA
Retrocopy PKYTKSVLKKGDKTNFPKKGDIVHCWYTGTLQDWTVFDTNFETTSKKKKNAKLLSFKVGIDKVIRGWNEA

Parental  LLTMSKGEKARLEIEPEWAYGKKGQPDAKIPPNAKLIFEVELVDID
          LL..SK.EKARLEIEPEWAYGK.GQ.DAKIPPNAKLIFEVELVDID
Retrocopy LLAVSKVEKARLEIEPEWAYGKRGQLDAKIPPNAKLIFEVELVDID

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_1041 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1041 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 15 parental genes, and 37 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000014018	4 retrocopies	retro_cfam_1788, retro_cfam_440, retro_cfam_616, retro_cfam_798,
Dipodomys ordii	ENSDORG00000009462	1 retrocopy	retro_dord_106,
Loxodonta africana	ENSLAFG00000003572	2 retrocopies	retro_lafr_357, retro_lafr_76,
Macropus eugenii	ENSMEUG00000004962	1 retrocopy	retro_meug_679,
Microcebus murinus	ENSMICG00000005808	2 retrocopies	retro_mmur_1582, retro_mmur_351,
Macaca mulatta	ENSMMUG00000016512	2 retrocopies	retro_mmul_2094, retro_mmul_735,
Monodelphis domestica	ENSMODG00000007352	1 retrocopy	retro_mdom_1554,
Mus musculus	ENSMUSG00000020949	1 retrocopy	retro_mmus_1322,
Otolemur garnettii	ENSOGAG00000003012	2 retrocopies	retro_ogar_2247, retro_ogar_3472,
Ochotona princeps	ENSOPRG00000011126	2 retrocopies	retro_opri_204, retro_opri_600,
Rattus norvegicus	ENSRNOG00000004629	1 retrocopy	retro_rnor_1165,
Ictidomys tridecemlineatus	ENSSTOG00000002249	1 retrocopy	retro_itri_650,
Tupaia belangeri	ENSTBEG00000006017	13 retrocopies	retro_tbel_1032, retro_tbel_1125, retro_tbel_1696, retro_tbel_1783, retro_tbel_2151, retro_tbel_2569, retro_tbel_3297, retro_tbel_3567, retro_tbel_3807, retro_tbel_4222, retro_tbel_4482, retro_tbel_730, retro_tbel_800,
Tursiops truncatus	ENSTTRG00000003547	3 retrocopies	retro_ttru_1227, retro_ttru_802, retro_ttru_904,
Tursiops truncatus	ENSTTRG00000006664	1 retrocopy	retro_ttru_1041 ,