RetrogeneDB ID: retro_ttru_840

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_3613:370069..370862(-)
• Located in intron of: ENSTTRG00000004072

Retrocopy information

• Ensembl ID: ENSTTRG00000004076
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: GNA12
• Ensembl ID: ENSTTRG00000003798
• Aliases: None
• Description: guanine nucleotide binding protein (G protein) alpha 12 [Source:HGNC Symbol;Acc:4380]

Sequence

>retro_ttru_840
CGAGGCCGACGCCGCCTCGTCAGGATCCTGCTGCTGGGCCCCACGAGAGCGGCAAGTCCACCTTCCTCAAGCAGATGCGC
ATCGTCCACGGCCGCGAGTTCGACCAGAGTGCGCTTCTGGAGTTCCGTGACGCCATCTTCAACAACATCCTCAAGGGCTC
AAGGCTTCTGGTTGATGCACGAGACAGGCTTGGTGTTCCTTGGCAGTATTCTGAAAATGAGAAGCAGGGGATGTACCTTA
TGGCCTTTGAGAACAAAGCAGGGCTGCCCGTGGCGTCTGCCACCTTTCAGCTGTTATGTACCTGCTCTGACCGCGCTCTG
CAGGGATTCTGGCATCAGGGAAGCTTTCAGCCGGAGGAGGGAGTTTCAGCTGGGTGAATCAGTGAAGTACTTCCTGGATA
ACTTGGATCGGATTGGCCAGCTGAATTACTTTCCCTAGCAAGCAGGACATCCTGCTGGCGGGGAAGGCCACCAAGGGCAA
AGTAGAGCATGACTTTGTCATAGAAAAAGTCCCTTTCAAGATGGTGGATGTGGGTGGCCAGAGGTCTCAGCGCCAGAAGT
GGTTCCAGTGCTTTGATGGGATCACCTTGATCCTGTTCATGGTCTCATCCAGTGAGTACGACCAGGTCCTCACGGAGGAC
AGGCGCACCAACCGCCTGGTGGAGCCCATGAACATCTTTGAGAACATCGTTAACAACGAGCTCTTCTTCAACGTCTCCAT
CGTCCTGCCTCTCAACAAGATGGACCTCCTGGTGGAGAAAGTGAAGACCATCGGCATCAAGAAGCACTTCCCA

Alignment

ORF - retro_ttru_840 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.52 %
• Parental protein coverage: 69.11 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  RAVRRLVKILLLGAG-ESGKSTFLKQMRIIHGREFDQKALLEFRDTIFDNILKGSRVLVDARDKLGIPWQ
          R..RRLV.ILLLG...ESGKSTFLKQMRI.HGREFDQ.ALLEFRD.IF.NILKGSR.LVDARD.LG.PWQ
Retrocopy RGRRRLVRILLLGPT<ESGKSTFLKQMRIVHGREFDQSALLEFRDAIFNNILKGSRLLVDARDRLGVPWQ

Parental  YSENEKHGMFLMAFENKAGLPVEPATFQL-YVPALSALWRDSGIREAFSRRSEFQLXXXXXXXXXXXXXX
          YSENEK.GM.LMAFENKAGLPV..ATFQL.YVPAL.AL.RDSGIREAFSRR.EFQL..............
Retrocopy YSENEKQGMYLMAFENKAGLPVASATFQL>YVPALTALCRDSGIREAFSRRREFQLGESVKYFLDNLDRI

Parental  XXXNYFP-SKQDILLARKATKGIVEHDFVIKKIPFKMVDVGGQRSQRQKWFQCFDGITSILFMVSSSEYD
          ...NYFP.SKQDILLA.KATKG.VEHDFVI.K.PFKMVDVGGQRSQRQKWFQCFDGIT.ILFMVSSSEYD
Retrocopy GQLNYFP>SKQDILLAGKATKGKVEHDFVIEKVPFKMVDVGGQRSQRQKWFQCFDGITLILFMVSSSEYD

Parental  QVLMEDRRTNRLVESMNIFETIVNNKLFFNVSIILFLNKMDLLVEKVKTVSIKKHFP
          QVL.EDRRTNRLVE.MNIFE.IVNN.LFFNVSI.L.LNKMDLLVEKVKT..IKKHFP
Retrocopy QVLTEDRRTNRLVEPMNIFENIVNNELFFNVSIVLPLNKMDLLVEKVKTIGIKKHFP

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_840 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_840 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 2 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000003770	4 retrocopies	retro_chof_1344, retro_chof_2083, retro_chof_601, retro_chof_653,
Tursiops truncatus	ENSTTRG00000003798	1 retrocopy	retro_ttru_840 ,