RetrogeneDB ID: retro_ttru_1556

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_116247:16212..16647(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTTRG00000007522
• Aliases: None
• Description: None

Sequence

>retro_ttru_1556
TATAGGCGGGTGTTTGAGGAGTACGTGTGGGTTATTAGCCAGTGGTACCCAGACATCCATATTGAAGGAGAGAATTACCT
CCCTCAACCAATATATAGACACATAGCATCTTTACTGTCAGTCTTCAAGTTAGTATTAATAGGTTTAATAATTGTTGGCA
AGGATTCTTTTGCTTTCTTTGGCATGCAAGCTCCTAGCGTCTGGCAGTGGGGCCAAGAAAATAAGATCTATGCATGTATG
ATGGTCTTTTCCTTCAGCAACATGATTGAGAACCAGTGTATGTCAACAGGTGCATTTGAGAAAACTTTGAAAGATGTACC
TGTGTGGTCTAAGCTGGAATCTGGTCACTTTCCATCCATGCAACAGCTTGTTCAACTTCTTGACAATGAAATGAAGCTCA
GTGTGCATATGGATTCAATCCCATACCATCGATCA

Alignment

ORF - retro_ttru_1556 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.97 %
• Parental protein coverage: 76.32 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  YRRVFEEYMRVISQRYPDIRIEGENYLPQPIYRHIASFLSVFKLVLIGLIIVGKDPFAFFGMQAPSIWQW
          YRRVFEEY..VISQ.YPDI.IEGENYLPQPIYRHIAS.LSVFKLVLIGLIIVGKD.FAFFGMQAPS.WQW
Retrocopy YRRVFEEYVWVISQWYPDIHIEGENYLPQPIYRHIASLLSVFKLVLIGLIIVGKDSFAFFGMQAPSVWQW

Parental  GQENKVYACMMVFFLSNMIENQCMSTGAFEITLNDVPVWSKLESGHLPSMQQLVQILDNEMKLNVHMDSI
          GQENK.YACMMVF..SNMIENQCMSTGAFE.TL.DVPVWSKLESGH.PSMQQLVQ.LDNEMKL.VHMDSI
Retrocopy GQENKIYACMMVFSFSNMIENQCMSTGAFEKTLKDVPVWSKLESGHFPSMQQLVQLLDNEMKLSVHMDSI

Parental  PHHRS
          P.HRS
Retrocopy PYHRS

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_1556 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1556 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 6 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000002576	1 retrocopy	retro_cpor_459,
Erinaceus europaeus	ENSEEUG00000013363	2 retrocopies	retro_eeur_63, retro_eeur_697,
Monodelphis domestica	ENSMODG00000021273	1 retrocopy	retro_mdom_467,
Oryctolagus cuniculus	ENSOCUG00000013866	9 retrocopies	retro_ocun_1080, retro_ocun_1229, retro_ocun_1783, retro_ocun_1803, retro_ocun_1831, retro_ocun_327, retro_ocun_328, retro_ocun_557, retro_ocun_779,
Pongo abelii	ENSPPYG00000029483	1 retrocopy	retro_pabe_3478,
Tursiops truncatus	ENSTTRG00000007522	2 retrocopies	retro_ttru_1556 , retro_ttru_694,