RetrogeneDB ID: retro_ttru_408

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_2162:605599..606062(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CYB5R3
• Ensembl ID: ENSTTRG00000015143
• Aliases: None
• Description: cytochrome b5 reductase 3 [Source:HGNC Symbol;Acc:2873]

Sequence

>retro_ttru_408
CTGGGCCACACGGTGCTCTCCCCAGCTTGGTTCCTCTATAGCCCTGCTATCCAGCACTGGGCCCCAGCCATTACCTTTGA
AAGCCTGGACATCAAGTTCTCACTGTGGCTTATCGTTGAGGAGATCATCCGCCGTAACACCCAGTGGTTCCACTTACAGC
CCCATTACATCTTGGGCCTCCTCATAGGCCATCACATCTACTTTTCAGCTCAAATCCACTAAAATCTTACCATTGAGCCC
TACACCATCTCCAGCCATGATGAAAGGGCTTTAGTGGACCTGGTCATCAAGGTTTACTTCAAAGACACCCAGCCCAAGTT
TCCCACTGGAAGTAAAGATGTCCCCATACCTGGAAAACAAGAAGATTGGAGACATCATTGAGTTCCAGGGCCCAACCTGG
CTGCTAGTCTACCAGGGCCAAGGAAAGTTTGCCATCTGTCCAGACAAGAAATCCAATCCCATC

Alignment

ORF - retro_ttru_408 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.88 %
• Parental protein coverage: 54.76 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LGHVVLSPVWFLYSLFMKLFQRSTPAITLENPDIKYPLRLIDKEVISHDTRRFRFALPSPQHILGLPVGQ
          LGH.VLSP.WFLYS......Q...PAIT.E..DIK..L.LI..E.I...T..F......P..ILGL..G.
Retrocopy LGHTVLSPAWFLYS---PAIQHWAPAITFESLDIKFSLWLIVEEIIRRNTQWFHL---QPHYILGLLIGH

Parental  HIYLSARIDGNLVIRPYTPVSSDDDKGFVDLVIKVYFKDTHPKFPAGGK-MSQYLESMKIGDTIEFRGPN
          HIY.SA.I..NL.I.PYT..SS.D....VDLVIKVYFKDT.PKFP.G.K.MS.YLE..KIGD.IEF.GP.
Retrocopy HIYFSAQIH*NLTIEPYT-ISSHDERALVDLVIKVYFKDTQPKFPTGSK>MSPYLENKKIGDIIEFQGPT

Parental  GLLVYQGKGTFAIRPDKKSSPV
          .LLVYQG.G.FAI.PDKKS.P.
Retrocopy WLLVYQGQGKFAICPDKKSNPI

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_408 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_408 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 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000009549	1 retrocopy	retro_amel_1305,
Bos taurus	ENSBTAG00000016516	2 retrocopies	retro_btau_1244, retro_btau_1287,
Pteropus vampyrus	ENSPVAG00000014126	1 retrocopy	retro_pvam_310,
Tursiops truncatus	ENSTTRG00000015143	2 retrocopies	retro_ttru_408 , retro_ttru_918,