RetrogeneDB ID: retro_ttru_406

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_2156:316920..317284(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AAMDC
• Ensembl ID: ENSTTRG00000007111
• Aliases: None
• Description: adipogenesis associated, Mth938 domain containing [Source:HGNC Symbol;Acc:30205]

Sequence

>retro_ttru_406
TCGTCCCCTGAAATTGTTTCCCTCTCATAGGGGGCAAATGAAAGTCCCAGGCTCTACTAAAATCTGTAAGGACTGCAAAG
CGTGGCCAGGGGGAAGTCAGGCTTGGGACTGGAGAGAAACAAGAACTGAGCGCTCTCCTGGTGTGCAGCCTGCAGATGTG
CAGGAAGTTGTCGAGAAAGGCGTGCTGACCCTTGTTATTGGCCAGGGGATGAGTGACGGCTCGAAGGTACCCTCATCAGC
TGTGGAGTACCTCAGGAAACAAGGCATTGATGTGCGGGTCCTCCAGACAGAGCAGGCACTGAAGGAGGATAATGCTTTGG
TTACCCAAGGCATCAGGGTGGGAGGGGTCTTCCATTCCACCTGC

Alignment

ORF - retro_ttru_406 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.15 %
• Parental protein coverage: 99.18 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SSPEIASLS-WGQMKVHGSTKIYKDCKVWPGGSRAWDWRETGTEHSPGVQPADVEEVVEKGVQILVIGRG
          SSPEI.SLS..GQMKV.GSTKI.KDCK.WPGGS.AWDWRET.TE.SPGVQPADV.EVVEKGV..LVIG.G
Retrocopy SSPEIVSLS>RGQMKVPGSTKICKDCKAWPGGSQAWDWRETRTERSPGVQPADVQEVVEKGVLTLVIGQG

Parental  MSEALKVPPSTVEYLKKKGIDVRVLQTEKAVKEYNALVTQGIRVGGVFHSTC
          MS...KVP.S.VEYL.K.GIDVRVLQTE.A.KE.NALVTQGIRVGGVFHSTC
Retrocopy MSDGSKVPSSAVEYLRKQGIDVRVLQTEQALKEDNALVTQGIRVGGVFHSTC

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_406 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_406 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 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000002128	1 retrocopy	retro_amel_1604,
Callithrix jacchus	ENSCJAG00000014890	1 retrocopy	retro_cjac_165,
Echinops telfairi	ENSETEG00000006423	1 retrocopy	retro_etel_187,
Felis catus	ENSFCAG00000007450	1 retrocopy	retro_fcat_8,
Loxodonta africana	ENSLAFG00000000518	1 retrocopy	retro_lafr_784,
Microcebus murinus	ENSMICG00000000300	2 retrocopies	retro_mmur_157, retro_mmur_424,
Mustela putorius furo	ENSMPUG00000015932	1 retrocopy	retro_mputfur_1468,
Rattus norvegicus	ENSRNOG00000012584	1 retrocopy	retro_rnor_2097,
Tarsius syrichta	ENSTSYG00000002262	1 retrocopy	retro_tsyr_1886,
Tursiops truncatus	ENSTTRG00000007111	1 retrocopy	retro_ttru_406 ,