RetrogeneDB ID: retro_ttru_324

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1855:86989..87634(+)
• Located in intron of: ENSTTRG00000000122

Retrocopy information

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

Parental gene information

• Parental gene symbol: C6orf203
• Ensembl ID: ENSTTRG00000008837
• Aliases: None
• Description: chromosome 6 open reading frame 203 [Source:HGNC Symbol;Acc:17971]

Sequence

>retro_ttru_324
ATGGCTGTGACTAGCGTCAGATTGCCCAGCAGCGTTTTAAGAAAGCCAGATGCCTGGATTGGGCTCTGCAGAGCGCTACG
AGGGACACCTTCACATAAACACTGTGCTTCCTGGAATCGATACTTATATTTGTCTAGTACCAAGTTAAATGCTTCAAATT
ATAAAACACTTTTGCATAACATTTTCTCACTGAGACTCTCAGGGCTTTTAATATCTCAAGAATATATTTTCCCATTTTCC
ATAAGACTCAAAAGTAATGTAAGCTCTAAAAAATCCACTAAAAAGACTCTGCAAAAAGTGGAAGATGAAGGGGACTCTGA
CGAAGACAGTGAGCATCATGAGATGAGTGAGCCGGAAGAGGAGCCAGAGGACGACCCCAGTGCGGTCAGAGAGCATAGGG
ACCTGGGCAAAGTAGTGCAGTCTTTCCGATATGATGTTACCCTGAAGACGGGCCTGGATATCGGGAGAAACAAAGTGGAA
GATGCATTCTACAAAGGTGAACTCAGGCTGAACGGGGAAAAATTACGGAAGAAAAGCAGAACGGTGAAAGTGGGAGATAC
ATTGGATCTTCTAATTGGAGAGGATAGAGAAGCAGAAACAGAGACAGTGATGAGGATTCTCCTGGAAAAAGTGTTTGAAG
ACCAG

Alignment

ORF - retro_ttru_324 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.56 %
• Parental protein coverage: 89.58 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAMTSIRLPSSVLRKPDAWIGLCGALRGTPSHKHCASWNRYLYLSNTKLNASNYKTFFHNIFSLRLSGLL
          MA.TS.RLPSSVLRKPDAWIGLC.ALRGTPSHKHCASWNRYLYLS.TKLNASNYKT..HNIFSLRLSGLL
Retrocopy MAVTSVRLPSSVLRKPDAWIGLCRALRGTPSHKHCASWNRYLYLSSTKLNASNYKTLLHNIFSLRLSGLL

Parental  ISQEYIFPFSIRLKSNVSSKKSTKKTLQKVEDEGDSDEESEHHEMSEQEEEPEDDPSAVRDHKDLDKVVQ
          ISQEYIFPFSIRLKSNVSSKKSTKKTLQKVEDEGDSDE.SEHHEMSE.EEEPEDDPSAVR.H.DL.KVVQ
Retrocopy ISQEYIFPFSIRLKSNVSSKKSTKKTLQKVEDEGDSDEDSEHHEMSEPEEEPEDDPSAVREHRDLGKVVQ

Parental  SFRYDVILKTGLDIGRNKVEDAFYKGELRLNGEKLWKKSRTVKVGDTLDLLIGEDREAETETVMRILLKK
          SFRYDV.LKTGLDIGRNKVEDAFYKGELRLNGEKL.KKSRTVKVGDTLDLLIGEDREAETETVMRILL.K
Retrocopy SFRYDVTLKTGLDIGRNKVEDAFYKGELRLNGEKLRKKSRTVKVGDTLDLLIGEDREAETETVMRILLEK

Parental  VFEEK
          VFE..
Retrocopy VFEDQ

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_324 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_324 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 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000003732	1 retrocopy	retro_cfam_1818,
Homo sapiens	ENSG00000130349	1 retrocopy	retro_hsap_3538,
Gorilla gorilla	ENSGGOG00000006113	1 retrocopy	retro_ggor_2389,
Macropus eugenii	ENSMEUG00000013534	1 retrocopy	retro_meug_2181,
Microcebus murinus	ENSMICG00000004137	1 retrocopy	retro_mmur_1269,
Macaca mulatta	ENSMMUG00000007391	1 retrocopy	retro_mmul_115,
Nomascus leucogenys	ENSNLEG00000013450	2 retrocopies	retro_nleu_1433, retro_nleu_499,
Otolemur garnettii	ENSOGAG00000008839	2 retrocopies	retro_ogar_1396, retro_ogar_390,
Pongo abelii	ENSPPYG00000016885	1 retrocopy	retro_pabe_2922,
Pan troglodytes	ENSPTRG00000018464	2 retrocopies	retro_ptro_1453, retro_ptro_2405,
Tursiops truncatus	ENSTTRG00000008837	2 retrocopies	retro_ttru_324 , retro_ttru_432,