RetrogeneDB ID: retro_ttru_891

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_534:89912..90433(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GNPDA2
• Ensembl ID: ENSTTRG00000016022
• Aliases: None
• Description: glucosamine-6-phosphate deaminase 2 [Source:HGNC Symbol;Acc:21526]

Sequence

>retro_ttru_891
ATGAAGCTCACCATCCTGGACCCCTCTTCTCAGGCCAGTGAGTGGGTGGCCAAATACATCAGGAACTGCATCATCCAGTT
TAGCCAAGGGCCAGACAAGTACTTCACCCTGGGGCTCCCCACTAGGAGCACCCCACTTGTCTGCTACAAGAAGCTGATTG
AGTACTATAAGAATGGAGACCTGTCCTTCAGATATGTGAAGACTTTCAACATGGATGAGTATGTGGGCCTTCTTTGAGAC
CACCCAGAGAGCTACCACGCCTTCATGTGGAACAACTCTTCAAACACATTGATATCCACCCAGAAAACACCCACATTCTG
GATGGGAATGCACCTGGCCTACAGGCTGAGTGTGATGCCTTTGAAGAGAAGATCAAGGCTGCGGGAGGGATTGAGCTGTT
TGTTGGGAGGCATCGGCCTTGGTGGACACATTGCCTTTTACGAGTTGGGCTCCAGTCTATTGTCTAGGACCATGTGAAGA
CACTGGCCATGGACACCATCCTGGCCAATGCTAGGTTCTTT

Alignment

ORF - retro_ttru_891 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.45 %
• Parental protein coverage: 62.91 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MRLVILDNYDLASEWAAKYICNRIIQFRPGQDRYFTLGLPTGSTPLGCYKKLIEYHKNGDLSFKYVKTFN
          M.L.ILD....ASEW.AKYI.N.IIQF..G.D.YFTLGLPT.STPL.CYKKLIEY.KNGDLSF.YVKTFN
Retrocopy MKLTILDPSSQASEWVAKYIRNCIIQFSQGPDKYFTLGLPTRSTPLVCYKKLIEYYKNGDLSFRYVKTFN

Parental  MDEYVGLPRNHPESYHSYMWNN-FFKHIDIDPNNAHILDGNATDLQAECDAFEKKIKEAG-GID-LFVGI
          MDEYVGL...HPESYH..MWNN..FKHIDI.P.N.HILDGNA..LQAECDAFE.KIK.AG.G...L..GI
Retrocopy MDEYVGLL*DHPESYHAFMWNN<LFKHIDIHPENTHILDGNAPGLQAECDAFEEKIKAAG>GLSCLLGGI

Parental  GPDGHIAFNEPVSSLVSRT-RVKTLAMDTILANAKYF
          G..GHIAF.E..SSL.SRT..VKTLAMDTILANA..F
Retrocopy GLGGHIAFYELGSSLLSRT<HVKTLAMDTILANARFF

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_891 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_891 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000015385	1 retrocopy	retro_meug_1772,
Monodelphis domestica	ENSMODG00000020593	1 retrocopy	retro_mdom_67,
Tursiops truncatus	ENSTTRG00000016022	1 retrocopy	retro_ttru_891 ,