RetrogeneDB ID: retro_ttru_1875

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_96535:19822..20131(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PRELID2
• Ensembl ID: ENSTTRG00000016708
• Aliases: None
• Description: PRELI domain containing 2 [Source:HGNC Symbol;Acc:28306]

Sequence

>retro_ttru_1875
AGGAAGGTGAACATTTTAAAGGTGCCTCATATCCAGTTAGAAGAGGAATCGTGGTTCAATCCTCAGGAAAGGAACGTGGC
TATAAGGAGCCACTGTCTTACGTGGACACCATATGCATCCGTGAAGGGAGAGTCTGTCTTCTGGGAAAGTATGAAAAATC
CAAATTGGACGGAGTTCATTCAAAAAGACGGGATTTCAATCACAGGGGCTGGTTTTCTCAACTGTGTTTTGGAAACTTTT
GCCAGCACATTTTGAAGACAGGGCGCCCAGAAGGGAATTAGAATAACGGAGATGCTGCTAAGGGAACAG

Alignment

ORF - retro_ttru_1875 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.44 %
• Parental protein coverage: 56.28 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KKVNILKVPNVQLEEESWFNPQERNMAIRSHCLTWTQYASMKEESVFRESIENPNWTEFIQKGRISITGA
          .KVNILKVP..QLEEESWFNPQERN.AIRSHCLTWT.YAS.K.ESVF.ES..NPNWTEFIQK..ISITGA
Retrocopy RKVNILKVPHIQLEEESWFNPQERNVAIRSHCLTWTPYASVKGESVFWESMKNPNWTEFIQKDGISITGA

Parental  GFLNCVLETFASTFLRQGAQKGIRIMEMLLKEQ
          GFLNCVLETFASTF.RQGAQKGIRI.EMLL.EQ
Retrocopy GFLNCVLETFASTF*RQGAQKGIRITEMLLREQ

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_1875 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1875 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
Cavia porcellus	ENSCPOG00000001222	1 retrocopy	retro_cpor_821,
Echinops telfairi	ENSETEG00000005000	2 retrocopies	retro_etel_1464, retro_etel_1676,
Homo sapiens	ENSG00000186314	1 retrocopy	retro_hsap_1134,
Macaca mulatta	ENSMMUG00000013588	1 retrocopy	retro_mmul_877,
Mus musculus	ENSMUSG00000056671	1 retrocopy	retro_mmus_1260,
Nomascus leucogenys	ENSNLEG00000009800	1 retrocopy	retro_nleu_928,
Otolemur garnettii	ENSOGAG00000010025	2 retrocopies	retro_ogar_2400, retro_ogar_2477,
Pan troglodytes	ENSPTRG00000017368	1 retrocopy	retro_ptro_770,
Tursiops truncatus	ENSTTRG00000016708	1 retrocopy	retro_ttru_1875 ,