RetrogeneDB ID: retro_ttru_1380

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_111785:7945..8776(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: WDR12
• Ensembl ID: ENSTTRG00000001231
• Aliases: None
• Description: WD repeat domain 12 [Source:HGNC Symbol;Acc:14098]

Sequence

>retro_ttru_1380
GCCTGGGTCAAAAAAGACAATCTGTCTTGCATACTACTGAGTGCCTCTATGGATCAGACTATTCTCCTATGGGAGTGGAA
TGTAGAGAGAAACAAAGTGAAAGCCCTGCACTGCTGCAGGGGTCATGCTGGCAGTGTGGAATCTATAGCTGTTGATAGCA
CAGGAACCAAATTTTGCAGTGGCTCCTGGGATAAGATGCTAAAGATTTGGTCTACAGTCCCTACAGATGAAGAAGATGAA
ATGGAAGAATCCACAAATCGACCGAGAAAGAAACAGAAAACAGAGCAATTGGGACTAACAAGAACTCCCATAGTGACCCT
CTCTGGCCACAAGGAAGCAATTTCCTCGGTTCTGTGGTCAGATGCTGAAGAAATCTGCAGTGAATCTTGGGACCACACAA
TTAGAGTGTGGGATGCTGAGTCCGGCAGTCTTAAGTCAACTTTGACAGGAAATAAAGTGTTTAACTGTATCTCCTATTCT
CCACTTTGTAAACGTTTAGCATCTGGAAGTACAGATAGGCATATCAGACTGTGGGATCCCCGAACTAAAGATGGTTCTTT
GGTGTCGCTGTCCCTAACCTCCCATACAGGCTGGGTCACATCAGTCAAGTGGTCTCCTGACCATGAGCAGCAGCTCATTT
CAGGCTCTTTAGATAACATGGTTAAGCTGTGGGATACAAGAAGTTGTAAGGCTCCTCTCTATGATCTGGCTGCTCATGAA
GACAAAGTTCTGAGTGTAGACTGGACAGTCACAGGGTTACTTCTGAGTGGAGGAGCAGACAATAAATTGTATTCCTATAG
ATATTCACCTACGACTTCGCACGTGGGTGCA

Alignment

ORF - retro_ttru_1380 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.5 %
• Parental protein coverage: 65.48 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AWVKKDNLSCILLSASMDQTILLWEWNVERNKVKALHCCRGHAGSVESIAVDSTGTKXXXXXXXXXXXXX
          AWVKKDNLSCILLSASMDQTILLWEWNVERNKVKALHCCRGHAGSVESIAVDSTGTK.............
Retrocopy AWVKKDNLSCILLSASMDQTILLWEWNVERNKVKALHCCRGHAGSVESIAVDSTGTKFCSGSWDKMLKIW

Parental  XXXPTDEEDEMEESTNRPRKKQKTEQLGLTRTPIVTLSGHKEAISSVLWSDAEEICSASWDHTIRVWDAE
          ...PTDEEDEMEESTNRPRKKQKTEQLGLTRTPIVTLSGHKEAISSVLWSDAEEICS.SWDHTIRVWDAE
Retrocopy STVPTDEEDEMEESTNRPRKKQKTEQLGLTRTPIVTLSGHKEAISSVLWSDAEEICSESWDHTIRVWDAE

Parental  SGSLKSTLTGNKVFNCISYSPLCKRLASGSTDRHIRLWDPRTKDGSLVSLSLTSHTGWVTSVKWSPAHEQ
          SGSLKSTLTGNKVFNCISYSPLCKRLASGSTDRHIRLWDPRTKDGSLVSLSLTSHTGWVTSVKWSP.HEQ
Retrocopy SGSLKSTLTGNKVFNCISYSPLCKRLASGSTDRHIRLWDPRTKDGSLVSLSLTSHTGWVTSVKWSPDHEQ

Parental  QLISGSLDNMVKLWDTRSCKAPLYDLAAHEDKVLSVDWTVTGLLLSGGADNKLYSYRYSPTTSHVGA
          QLISGSLDNMVKLWDTRSCKAPLYDLAAHEDKVLSVDWTVTGLLLSGGADNKLYSYRYSPTTSHVGA
Retrocopy QLISGSLDNMVKLWDTRSCKAPLYDLAAHEDKVLSVDWTVTGLLLSGGADNKLYSYRYSPTTSHVGA

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_1380 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1380 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 12 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000012519	1 retrocopy	retro_cfam_1759,
Choloepus hoffmanni	ENSCHOG00000013851	1 retrocopy	retro_chof_118,
Callithrix jacchus	ENSCJAG00000005171	1 retrocopy	retro_cjac_2690,
Cavia porcellus	ENSCPOG00000008824	1 retrocopy	retro_cpor_1107,
Homo sapiens	ENSG00000138442	1 retrocopy	retro_hsap_1615,
Gorilla gorilla	ENSGGOG00000026073	1 retrocopy	retro_ggor_1222,
Loxodonta africana	ENSLAFG00000011955	1 retrocopy	retro_lafr_1102,
Mus musculus	ENSMUSG00000026019	3 retrocopies	retro_mmus_1394, retro_mmus_2649, retro_mmus_2897,
Nomascus leucogenys	ENSNLEG00000007018	1 retrocopy	retro_nleu_2743,
Pongo abelii	ENSPPYG00000013089	1 retrocopy	retro_pabe_1327,
Pan troglodytes	ENSPTRG00000012823	1 retrocopy	retro_ptro_1083,
Tursiops truncatus	ENSTTRG00000001231	1 retrocopy	retro_ttru_1380 ,