RetrogeneDB ID: retro_ttru_110

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_124:114471..115022(-)
• Located in intron of: ENSTTRG00000005598

Retrocopy information

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

Parental gene information

• Parental gene symbol: RABL5
• Ensembl ID: ENSTTRG00000005871
• Aliases: None
• Description: RAB, member RAS oncogene family-like 5 [Source:HGNC Symbol;Acc:21895]

Sequence

>retro_ttru_110
ATGCTGAAGGCCAAGATCCTCTTTGTGGGGCCCTGTGAGAGTGGAAAAACCTTTTGGGCCAACTTCCTGACAAAATCTTC
TGACATCGCCAAATACAACCCAACCCAAGGAATGAGGATCCTGGAATTTGAGAACCCATATGTTACCAGCAACAACAAAT
GCACGGGGTGTGAATCTGAGCTCTGGGATTGTGGTGGCGATCCAATGTTCGAGTCTTGCTGGCCAGCCCTGATGAGGGAC
TCTTATGGGGTGGTGATCATCTTCAATGCTGACATCCCAAGCCACCTGAAGGAAACTGAGATGTGGTATTCCTGCTTCGT
CCAGCAGCAGTTTTTACAGGATACTCAATATCTGTTGAGTGCACACCATAAACCAGGCTCTTGAAGTGACAAAGCAAACC
CAGCTTTGGCGCCATCCTTGAACAAGCTGAAGCTGGTGCACTCAAATCTTAAGGATGACCGGAAGAGATCAGGATGGAGT
TCATGAAGTATTTAAGAAGCATAATCAACTCAGTGTCTGAGAGCAGAGACTGGGAGGAGATGTCAATTATC

Alignment

ORF - retro_ttru_110 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.86 %
• Parental protein coverage: 99.46 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MLKAKILFVGPCESGKTVLANFLTESSDITEYNPTQGVRILEFENPHVTSNDKSTGCEFELWDCGGDPKF
          MLKAKILFVGPCESGKT..ANFLT.SSDI..YNPTQG.RILEFENP.VTSN.K.TGCE.ELWDCGGDP.F
Retrocopy MLKAKILFVGPCESGKTFWANFLTKSSDIAKYNPTQGMRILEFENPYVTSNNKCTGCESELWDCGGDPMF

Parental  ESCWPALMKDSHGVVVVFNADIPGHLKEIEMWYSCFVQQQFLQDTQCLLIAHHKPGSGSDKGNLALAPPL
          ESCWPALM.DS.GVV..FNADIP.HLKE.EMWYSCFVQQQFLQDTQ.LL.AHHKPGS.SDK.N.ALAP.L
Retrocopy ESCWPALMRDSYGVVIIFNADIPSHLKETEMWYSCFVQQQFLQDTQYLLSAHHKPGS*SDKANPALAPSL

Parental  NKLKLVHSNLEDD-PEDIRMEFVKYLRSIINSVSESRDREEMSII
          NKLKLVHSNL.DD.PE.IRMEF.KYLRSIINSVSESRD.EEMSII
Retrocopy NKLKLVHSNLKDD<PEEIRMEFMKYLRSIINSVSESRDWEEMSII

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_110 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_110 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000014343	1 retrocopy	retro_btau_1408,
Choloepus hoffmanni	ENSCHOG00000012225	1 retrocopy	retro_chof_409,
Macropus eugenii	ENSMEUG00000006225	1 retrocopy	retro_meug_331,
Myotis lucifugus	ENSMLUG00000012634	1 retrocopy	retro_mluc_2510,
Oryctolagus cuniculus	ENSOCUG00000007709	1 retrocopy	retro_ocun_522,
Tursiops truncatus	ENSTTRG00000005871	1 retrocopy	retro_ttru_110 ,