RetrogeneDB ID: retro_ttru_252

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1688:397941..398565(+)
• Located in intron of: ENSTTRG00000006965

Retrocopy information

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

Parental gene information

• Parental gene symbol: BAG1
• Ensembl ID: ENSTTRG00000010573
• Aliases: None
• Description: BCL2-associated athanogene [Source:HGNC Symbol;Acc:937]

Sequence

>retro_ttru_252
CAGGCCGCAGGTGTGGAAGAAAGCATGGCCTCGCTCGGCCCCGAGCGAGGAATGGCAGCTGCCGAGCCCAGCGGGACCCT
CACCCGCATTAATGAGAAGCACGATCTTCAAGTTATCCCGCAAGAGGGCGGTAGTGAACCAATGGTCCAAGACCTGGCCC
AGGTTTTTTCAGAGGCCACAGGGGTCCCGCTGCCTTTTCAGAAACCCATATTTAAGGGAAAATCTCTGAAGGAAATGGAG
ACGCCGGTGTCAGCACCTGGAATACAGAATGGTTGCCGGGTCATGTTACTTGGGAAAAAGAACAGTCCAGAGGAAGAAGT
TGAACTAAAGAAGTTGAAAGATTTGGAGAAGTCTGTGGAGAAGATAGCTGACCAACTGGAAGAGCGGAATAAAGAGCTTT
CCGGAATCCAGCAGGGTTTTCTAGCCAAGGATTTGCAAGCTGAAGCTCTCTGCAAACTCGATAGGAGAGTCAAAGCCACA
ATCGAGCAGTTTATGAAGATCTTGGAAGAGATCGACACACTAATGCTGCCAGAAAATTGCAAAGACAGTAGAATGAAAAG
GAAGGGTTTGGTGAAAAGGATTCAGGCGTTCCCAGCCGAGTGTGACACAGTGGGGCAGAGCGTC

Alignment

ORF - retro_ttru_252 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.0 %
• Parental protein coverage: 75.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EAVGSEEVALSEEVARSEEMAAAGLSVTVTHSNEKHDLQVIPQEGCSEPIVQDLAQVVEEATGVPLPFQK
          .A.G.EE...S....R...MAAA..S.T.T..NEKHDLQVIPQEG.SEP.VQDLAQV..EATGVPLPFQK
Retrocopy QAAGVEESMASLGPERG--MAAAEPSGTLTRINEKHDLQVIPQEGGSEPMVQDLAQVFSEATGVPLPFQK

Parental  LIFKGKSLKEMETPLSALGIQNGCRVMLIGKKNSPEEEVEIKKLKDLEKSVEKIADQLEELSKELTGIQQ
          .IFKGKSLKEMETP.SA.GIQNGCRVML.GKKNSPEEEVE.KKLKDLEKSVEKIADQLEE..KEL.GIQQ
Retrocopy PIFKGKSLKEMETPVSAPGIQNGCRVMLLGKKNSPEEEVELKKLKDLEKSVEKIADQLEERNKELSGIQQ

Parental  GFLAKDLQAEALCKLDRRVIATVGQFMKILEEIDTLXXPENFKDSRMKRKGLVKKIQAFLAACDTVEQSI
          GFLAKDLQAEALCKLDRRV.AT..QFMKILEEIDTL..PEN.KDSRMKRKGLVK.IQAF.A.CDTV.QS.
Retrocopy GFLAKDLQAEALCKLDRRVKATIEQFMKILEEIDTLMLPENCKDSRMKRKGLVKRIQAFPAECDTVGQSV

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_252 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_252 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 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000017845	1 retrocopy	retro_btau_901,
Choloepus hoffmanni	ENSCHOG00000012656	1 retrocopy	retro_chof_2328,
Callithrix jacchus	ENSCJAG00000008074	1 retrocopy	retro_cjac_4052,
Equus caballus	ENSECAG00000017942	1 retrocopy	retro_ecab_267,
Homo sapiens	ENSG00000107262	1 retrocopy	retro_hsap_4673,
Gorilla gorilla	ENSGGOG00000016534	1 retrocopy	retro_ggor_2899,
Macaca mulatta	ENSMMUG00000020148	1 retrocopy	retro_mmul_2487,
Nomascus leucogenys	ENSNLEG00000005204	1 retrocopy	retro_nleu_2165,
Oryctolagus cuniculus	ENSOCUG00000008945	1 retrocopy	retro_ocun_481,
Pongo abelii	ENSPPYG00000019138	1 retrocopy	retro_pabe_3630,
Pan troglodytes	ENSPTRG00000020856	1 retrocopy	retro_ptro_3105,
Tursiops truncatus	ENSTTRG00000010573	2 retrocopies	retro_ttru_252 , retro_ttru_946,