RetrogeneDB ID: retro_ttru_1576

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_18711:646..1197(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PPP2CB
• Ensembl ID: ENSTTRG00000000102
• Aliases: None
• Description: protein phosphatase 2, catalytic subunit, beta isozyme [Source:HGNC Symbol;Acc:9300]

Sequence

>retro_ttru_1576
CTATTCATGGGTGACTATGTAGACAGAGGTTATTATTCTGTGGAGACGCTGACTCATTTTGTGGCATTAAAGGTGCGTTA
TCCAGAACATATCACAATATTGAGAGGAACCACGAAAGCCGACAAATTACCCAAGTATATGGCTTTTATGATGAATGTCT
GCGAAAGTATGGGAATGCCAATGTTTGGAAATACTTTACAGATCTGTTTGACTATCTGCCACTTACAGCTTTAGCAGATG
GACAGATACTCTGCCTCCATGGTGGCCTTTCCCCATCCATAGATACACTGGATCATAGGAGAGCCTTGGATTGTTTACAA
GAAGTTCCACACGAGGGCCCAACGTGTGATCCGTCATGGTCAGATCCAGGTGATCGTGGTGGGTGGGGTATTTCACCACG
CGGTGCTGGCTACACATTTGGACGAGATATTTCTGAAACATTTAACCATGCCAGTGGTCTCACACTGGTTTCTCGTGCTC
ACCAACTTGTAATGGAGGGATACAATTGGTGTCATGATCGGAACGTGGTTACCATTTTCAGCGTACCCGAC

Alignment

ORF - retro_ttru_1576 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.81 %
• Parental protein coverage: 64.56 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LFMGDYVDRGYYSVETVTLLVALKVRYPERITILRG-NHESRQITQVYGFYDECLRKYGNANVWKYFTDL
          LFMGDYVDRGYYSVET.T..VALKVRYPE.ITILRG.NHESRQITQVYGFYDECLRKYGNANVWKYFTDL
Retrocopy LFMGDYVDRGYYSVETLTHFVALKVRYPEHITILRG<NHESRQITQVYGFYDECLRKYGNANVWKYFTDL

Parental  FDYLPLTALVDGQIFCLHGGLSPSIDTLDHIRALDRLQEVPHEGPMCDLLWSDPDDRGGWGISPRGAGYT
          FDYLPLTAL.DGQI.CLHGGLSPSIDTLDH.RALD.LQEVPHEGP.CD..WSDP.DRGGWGISPRGAGYT
Retrocopy FDYLPLTALADGQILCLHGGLSPSIDTLDHRRALDCLQEVPHEGPTCDPSWSDPGDRGGWGISPRGAGYT

Parental  FGQDISETFNHANGLTLVSRAHQLVMEGYNWCHDRNVVTIFSAPN
          FG.DISETFNHA.GLTLVSRAHQLVMEGYNWCHDRNVVTIFS.P.
Retrocopy FGRDISETFNHASGLTLVSRAHQLVMEGYNWCHDRNVVTIFSVPD

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_1576 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1576 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 10 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000001615	1 retrocopy	retro_amel_663,
Bos taurus	ENSBTAG00000009245	3 retrocopies	retro_btau_1199, retro_btau_1750, retro_btau_704,
Dasypus novemcinctus	ENSDNOG00000010906	1 retrocopy	retro_dnov_2211,
Echinops telfairi	ENSETEG00000018123	4 retrocopies	retro_etel_1607, retro_etel_1923, retro_etel_680, retro_etel_702,
Felis catus	ENSFCAG00000025139	1 retrocopy	retro_fcat_1884,
Monodelphis domestica	ENSMODG00000019001	2 retrocopies	retro_mdom_192, retro_mdom_632,
Otolemur garnettii	ENSOGAG00000002488	1 retrocopy	retro_ogar_3188,
Tursiops truncatus	ENSTTRG00000000102	1 retrocopy	retro_ttru_1576 ,
Tursiops truncatus	ENSTTRG00000005532	1 retrocopy	retro_ttru_1015,
Tursiops truncatus	ENSTTRG00000016859	1 retrocopy	retro_ttru_1584,