RetrogeneDB ID: retro_ttru_135

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1337:22528..23535(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ACAT1
• Ensembl ID: ENSTTRG00000012023
• Aliases: None
• Description: acetyl-CoA acetyltransferase 1 [Source:HGNC Symbol;Acc:93]

Sequence

>retro_ttru_135
ATGGCTGTACCGGTGGCCCTTCTGCGCGGTGGTGCCCGCAGGCGCAGCCCCCTGCTTCGGAGGTGGATGCAGGAAATAAG
ATATGTGGAACGAAGTTATGATCAAAACCCACTTTGAATGAAGTGGTCATAGTAAGTGCTACGAGAACACCCATTGGGTC
CTTTCTAGGCAGCCTTTCCTCTCTGCCAGCCACTGAGCTTGGTTCCATTGCAATTCAGGGAGCCATTGAAAAGGCAGGGT
TTCCAAAAGAAGCAGTGAAAGAAGCATACATGGCTAATGTTCTACAAGGAGGTGGAGGACAAGCCCCTACAAGGCAAGCA
GTACTGGGTGCAGGCTTACTTATTTCTACTCCATGTACCACTGTAAACTAAAGTTTGTGTCTCAGGAATGAAAGCTATCA
TGATGGCCTCTCAGAATCTTATGTGTGGACCTCAGGATGTGATGGTGGCAGGTGGGATGGAGAGCATGTCCAATGTTCCC
TACGTAATGAACAGAGGAGCAACACCATATAGTGGGGTAAAGCTTGAAGATTTGATTGTAAAAGATGGGCTAACTGATGT
CTACAATAAAGTTCATATGGGCAACTGTGCTGAAAATACTGCAAAGAAGCTGAATATTGCACGAGATGAACAGGATACTT
ATGCTGTTAACTCCTATACCAGAAGTAAAGCAGCATGAGAAGCTGGAAAATTTGGAAGTGAAGTTGTTCCTGTCACAGTT
ACAGTAAAAGGTAAACCAGATGTAGTGGTGAAAGAAGATGAAGAATACAAACATGTTGACTTTAGCAGAGTTCCAAAGCT
GAAGACGTGTTTCCAAAAAGAGAATGGTACAGTAACAGCTCCCAGTGCCAGCACACTGAATGAAGGAGCAGCTGCTATGG
TTCTGATGACTGCAGATGCAACAAGAGGCTCAATGTTAAACCACTGGCAAGAATAGCAGCATTTGCTGATGCTGCTGTAG
AACCTATTGATTTTCCAGTTGCACCTGCATATGCTGCACCTAAGATG

Alignment

ORF - retro_ttru_135 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.68 %
• Parental protein coverage: 78.64 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MAVLAALLRGGARGRSPLLRRQMQEIRYVERSYV-SKPTLNEVVIVSAARTPIGSFLGSLSSLPATKLGS
          MAV..ALLRGGAR.RSPLLRR.MQEIRYVERSY..SKPTLNEVVIVSA.RTPIGSFLGSLSSLPAT.LGS
Retrocopy MAVPVALLRGGARRRSPLLRRWMQEIRYVERSYD<SKPTLNEVVIVSATRTPIGSFLGSLSSLPATELGS

Parental  IAIQGAIEKA-IPKEEVKEAYMGNVLQGGEGQAPTRQAVLGAGLPISTPCTTVN-KVCASGMKAIMMASQ
          IAIQGAIEKA..PKE.VKEAYM.NVLQGG.GQAPTRQAVLGAGL.ISTPCTTVN.KVC.SGMKAIMMASQ
Retrocopy IAIQGAIEKAGFPKEAVKEAYMANVLQGGGGQAPTRQAVLGAGLLISTPCTTVN>KVCVSGMKAIMMASQ

Parental  NLMCGHQDVMVAGGMESMSNVPYVMNRGATPYGGIKLEDLIVKDGLTDVYNKIHMGNCAENTSKKLNIAR
          NLMCG.QDVMVAGGMESMSNVPYVMNRGATPY.G.KLEDLIVKDGLTDVYNK.HMGNCAENT.KKLNIAR
Retrocopy NLMCGPQDVMVAGGMESMSNVPYVMNRGATPYSGVKLEDLIVKDGLTDVYNKVHMGNCAENTAKKLNIAR

Parental  DEQDTYAINSYTRSKAAWEAGKFGNEVVPVTITVKGKPDVVVKEDEEYKRVDFSRVPKLKTVFQKENGTV
          DEQDTYA.NSYTRSKAA.EAGKFG.EVVPVT.TVKGKPDVVVKEDEEYK.VDFSRVPKLKT.FQKENGTV
Retrocopy DEQDTYAVNSYTRSKAA*EAGKFGSEVVPVTVTVKGKPDVVVKEDEEYKHVDFSRVPKLKTCFQKENGTV

Parental  TAANASTLNDGAAAMVLMTADAA-KRLSVKPLARIAAFADAAVEPIDFPVAPAYAVPKV
          TA..ASTLN.GAAAMVLMTADA..KRL.VKPLARIAAFADAAVEPIDFPVAPAYA.PK.
Retrocopy TAPSASTLNEGAAAMVLMTADAT<KRLNVKPLARIAAFADAAVEPIDFPVAPAYAAPKM

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_135 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_135 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Tursiops truncatus	ENSTTRG00000012023	1 retrocopy	retro_ttru_135 ,