RetrogeneDB ID: retro_ttru_1528

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_115323:56106..56697(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ORC6
• Ensembl ID: ENSTTRG00000013294
• Aliases: None
• Description: origin recognition complex, subunit 6 [Source:HGNC Symbol;Acc:17151]

Sequence

>retro_ttru_1528
GCTTCCTGCATGAAGTGCCCCTTGGACAGGGCTTATTTAATTAAACTTTCTGGTTTGAACAAGAAGATGTATCAGAGTTG
TCTTAAATCTTTTGAGTGTTTACTGGGCCTGAACTCGAATATTGGAATAAGAGACCTAGCTGTACAGTTTAGCTGTGCAA
AAGCAGTGAACATGGCTTCAAAGGTACTGCAAAGCTATGAGTCCAGTCTTCCACAAACACAGCAGGTGGATCTTGACTTA
CCCAGGCCGCTTTTCACCACTGCTGCACTACTTTCAGCATGCAAGATTCTAAAGCTAAAGGTGGACAAAAATAAAATGGC
AGCCACATCCGGTGTAAAAAAAGCCATGTTTGATCGACTCTGTAAACACTTAGAGAAGACTGGGCAGCAGATCGACAGAG
AGCCTGGAGATTCAGCTACTCCACCATGGAAGAAAAAGAAGACAGTGGTTGAACCTTCAGCAACGGAAACAGAGAATGTA
GTAGAGATCCCACATAAACGGCAGAAAGATGAAGATCTGACACAGGATTATGAACAGTGGAAAAGGAAAATTTTGGAAAA
TGCTGTCAAAGCACAAAAGGCTACAACAGAG

Alignment

ORF - retro_ttru_1528 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.4 %
• Parental protein coverage: 78.17 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ASYVKFPLDRDYLIKLSGLNKKMYQSCLKSFECLLGLNSNIGIRDLAVQFSCTEAVNMASKILQSYESSL
          AS..K.PLDR.YLIKLSGLNKKMYQSCLKSFECLLGLNSNIGIRDLAVQFSC..AVNMASK.LQSYESSL
Retrocopy ASCMKCPLDRAYLIKLSGLNKKMYQSCLKSFECLLGLNSNIGIRDLAVQFSCAKAVNMASKVLQSYESSL

Parental  PQTQQVDLDLSRPLFTTAALLSACKILKLKVDKNKMAATSGVKKAMFDRLCKQLEKIGQQIDREPGDSAT
          PQTQQVDLDL.RPLFTTAALLSACKILKLKVDKNKMAATSGVKKAMFDRLCK.LEK.GQQIDREPGDSAT
Retrocopy PQTQQVDLDLPRPLFTTAALLSACKILKLKVDKNKMAATSGVKKAMFDRLCKHLEKTGQQIDREPGDSAT

Parental  PPWKKKKTVVEPSATEIENVVEIPHKPQKDEDLTQDYEQWKRKILENAAKAQKATTE
          PPWKKKKTVVEPSATE.ENVVEIPHK.QKDEDLTQDYEQWKRKILENA.KAQKATTE
Retrocopy PPWKKKKTVVEPSATETENVVEIPHKRQKDEDLTQDYEQWKRKILENAVKAQKATTE

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_1528 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1528 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 8 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000002944	1 retrocopy	retro_chof_2302,
Dasypus novemcinctus	ENSDNOG00000010859	1 retrocopy	retro_dnov_838,
Erinaceus europaeus	ENSEEUG00000012122	1 retrocopy	retro_eeur_489,
Otolemur garnettii	ENSOGAG00000000688	1 retrocopy	retro_ogar_1426,
Sarcophilus harrisii	ENSSHAG00000004207	2 retrocopies	retro_shar_211, retro_shar_759,
Tupaia belangeri	ENSTBEG00000000278	1 retrocopy	retro_tbel_3089,
Tarsius syrichta	ENSTSYG00000005205	2 retrocopies	retro_tsyr_1294, retro_tsyr_889,
Tursiops truncatus	ENSTTRG00000013294	1 retrocopy	retro_ttru_1528 ,