RetrogeneDB ID: retro_ttru_638

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_295:539586..539949(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTTRG00000010400
• Aliases: None
• Description: None

Sequence

>retro_ttru_638
CCACCCAGAGCCAGTTTAAGAGCTGTTCAGTGATGGTCATGGAAGATAAGAAGGGAGAGAGAGTAGCCGACGGGAAACCA
GGAGGTATCCAAAGGGAGGAAGAAGATGTGAAACGACCCGGGAAAGATGCTACCAAGAAGGGCTAGAGGACAGCTGTGCT
CTTCTAGCCAAGGAGACGATGGGCTGGAAGAAGGCTGTGAGCGAGCACCGAGCAGCAAAAGCTCACCTGAACTCTGCGCT
CGTGAGGACAAAGAACCAGCCCAGGGTCTGCACGTGACAAGTTCTCTGCAGAAGAGCACGGACTTGATGGAGGCCATGCA
GAGTCTTAGGAAGATCTCAGAAATCCAGGCCGCCCTGAGGGAG

Alignment

ORF - retro_ttru_638 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 54.4 %
• Parental protein coverage: 55.2 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  PEKPPKELVNEWSLKIRKEM-RVVDRQIRDIQREEEKVKRSVKDAAKKG-QKDVCVVLAKEMIRSRKAVS
          P.......V..WS.KIR.E..RV.D.....IQREEE.VKR..KDA.KKG...D.C..LAKE.....KAVS
Retrocopy PPRASLRAVQ*WSWKIRRER<RVADGKPGGIQREEEDVKRPGKDATKKG<LEDSCALLAKETMGWKKAVS

Parental  KLYASKAHMNSVLMGMKNQLAV-LRVAGSLQRSTEVMKAMQSLVKIPEIQATMRE
          ...A.KAH.NS.L...KNQ..V.L.V..SLQ.ST..M.AMQSL.KI.EIQA..RE
Retrocopy EHRAAKAHLNSALVRTKNQPRV<LHVTSSLQKSTDLMEAMQSLRKISEIQAALRE

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_638 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_638 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.

---

Parental genes homology:

Parental genes homology involve 10 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000007479	1 retrocopy	retro_cfam_1869,
Callithrix jacchus	ENSCJAG00000019406	2 retrocopies	retro_cjac_2032, retro_cjac_2784,
Cavia porcellus	ENSCPOG00000001723	1 retrocopy	retro_cpor_920,
Macropus eugenii	ENSMEUG00000009111	1 retrocopy	retro_meug_178,
Microcebus murinus	ENSMICG00000005492	3 retrocopies	retro_mmur_1110, retro_mmur_1396, retro_mmur_47,
Mus musculus	ENSMUSG00000053119	1 retrocopy	retro_mmus_1683,
Oryctolagus cuniculus	ENSOCUG00000029277	1 retrocopy	retro_ocun_1044,
Ochotona princeps	ENSOPRG00000002191	2 retrocopies	retro_opri_18, retro_opri_436,
Sorex araneus	ENSSARG00000008917	1 retrocopy	retro_sara_13,
Tursiops truncatus	ENSTTRG00000010400	1 retrocopy	retro_ttru_638 ,