RetrogeneDB ID: retro_ttru_694

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_3100:157539..157974(-)
• Located in intron of: ENSTTRG00000014372

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_694
TATAGGTGGGTGTTTTAGGAGTACACGCGGATTGTTAGCTAGCGGTACCCAGGCATTCTCATTGAAGGAGAGAATTACCT
CCCTCAACCAATATATAGACACATAGCATCTTTCCTGTCGGTCTTCAAGCTAGCCTAGTAATTAGGCTTAATAATTGTTG
GCAAGGATCCTTTTGCCTTGTTTGGCATGCAGGCTCCTAGCATCTGGCAGTGAGGCCAAGAAAATAAGGTCTCTGCATGC
ATGATGGTCTTCTTCTTGAGCAACAGGATTGAGAACCAGTGTATGTTAACAGGTGCATTTGAGATAACTTTGAATGATGT
ACCTGTGTGGTCTAAGCTGGAATCTGGTCACCTTCCATCCATGCAACAGCTTGTTCAAATTCTTGACAATGAAATGAAGT
TCAATGTGCATATGGATTCAATCCCACACCATCGA

Alignment

ORF - retro_ttru_694 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.59 %
• Parental protein coverage: 75.79 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  YRRVFEEYMRVISQRYPDIRIEGENYLPQPIYRHIASFLSVFKLVL-IGLIIVGKDPFAFFGMQAPSIWQ
          YR.VF.EY.R..S.RYP.I.IEGENYLPQPIYRHIASFLSVFKL....GLIIVGKDPFA.FGMQAPSIWQ
Retrocopy YRWVF*EYTRIVS*RYPGILIEGENYLPQPIYRHIASFLSVFKLA**LGLIIVGKDPFALFGMQAPSIWQ

Parental  WGQENKVYACMMVFFLSNMIENQCMSTGAFEITLNDVPVWSKLESGHLPSMQQLVQILDNEMKLNVHMDS
          .GQENKV.ACMMVFFLSN.IENQCM.TGAFEITLNDVPVWSKLESGHLPSMQQLVQILDNEMK.NVHMDS
Retrocopy *GQENKVSACMMVFFLSNRIENQCMLTGAFEITLNDVPVWSKLESGHLPSMQQLVQILDNEMKFNVHMDS

Parental  IPHHR
          IPHHR
Retrocopy IPHHR

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_694 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_694 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 ,