RetrogeneDB ID: retro_ttru_1295

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_109901:9225..10260(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GPD1
• Ensembl ID: ENSTTRG00000001012
• Aliases: None
• Description: glycerol-3-phosphate dehydrogenase 1 (soluble) [Source:HGNC Symbol;Acc:4455]

Sequence

>retro_ttru_1295
AAAGTGTGCATCGTGGGCTCGGGGAACTGGGGCTCAGCTGTTGCAAAAATAATTGGTAATAATGTCAAGAAACTTGAGAA
GTTTGCCTCCGTGGTCAAGATGTGGGTCTTTGAAGAAACAGTTAATGGGAGAAAACTGACAGACATCATAAATAATGACC
ATGAAAATGTAAAATATCTCCCTGGACACAAGCTGCCAGAAAATGTGGTTGCTATCCCGAACCTCAGTGAGACTGTGTGG
GATGCAGACCTGCTGGTGTTTGTCATCCCCCACCAGTTCATTCACAGGATCTGTGACGAGATCTCTGGGAAAGTGCCCAA
GGGCGCGCTGGGCATCAGCCTCATCAAGGGCATAGAGGAGGGTCCCGAGGGGTTGAAGCTCATTTCCGACATCATCCGAG
AGAAGATCGGCATTGACATCAGTGTGCTCATGGGAGCCAACACTGCCAATGAGGTGGCTGCTGGGAAGTTCTGTGAGACC
ACCATCGGCAGCAAGGTAACAGAGAATGGCCTTCTCTTCAAAGAACTTCTGCAGACTCCAAATTTTCGAATTATGGTGGT
TGATGATGCAGACACTGTTGAACTTTGTGGTGCCCTGAAGAACATTGTGGCTGTGGGAGCTGGGTTCTGCGACGGCCTCC
GCTGGGGCGACAACACCAAAGCTGCCGTCATCCGCCTGGGGCTCATGGAAATGATCGCCTTCACCAGGATCTTCTGCAAG
GGCCAGGTGTCCATGGCCACCTTTCTGGAGAGCTGCGGCATAGCCGACCTGATCACCACCTGCTATGGGGGTCGGAACCG
CAAGGTAGCAGAGGCCTTTGCCAGGGCCGGAAGGACCATTGAAGAATTGGAGAGGGAGATGCTGAATGGGCAGAAGCTGC
AAGGACCTCAGACTTCCGCTGAGGTGTACCGCATCCTCAAACAGAAGGGGCTGCTGGACAAGTTTCCACTGTTCACTGCA
GTGTACCAGATCTGCTACGAAGGTAGGCCCGTTCAGGAGATGTTGTCTTGTCTCCAGAGCCATCCGGAGCATATA

Alignment

ORF - retro_ttru_1295 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.3 %
• Parental protein coverage: 98.85 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KVCIVGSGNWGSAIAKIVGGNAAQLARFDPRVTMWVFEEDVGGRKLTEVINTQHENVKYLPGHKLPPNVV
          KVCIVGSGNWGSA.AKI.G.N...L..F...V.MWVFEE.V.GRKLT..IN..HENVKYLPGHKLP.NVV
Retrocopy KVCIVGSGNWGSAVAKIIGNNVKKLEKFASVVKMWVFEETVNGRKLTDIINNDHENVKYLPGHKLPENVV

Parental  AVPDVVQAAVDADILIFVVPHQFIGKICDQLKGHLKADTIGISLIKGVDEGPNGLKLISEVIGERLGIPM
          A.P.......DAD.L.FV.PHQFI..ICD...G.......GISLIKG..EGP.GLKLIS..I.E..GI..
Retrocopy AIPNLSETVWDADLLVFVIPHQFIHRICDEISGKVPKGALGISLIKGIEEGPEGLKLISDIIREKIGIDI

Parental  SVLMGANIASEVADEKFCETTIGCKDLAQGQLLKELMQTPNFRITVVQEVDTVELCGALKNIVAVGAGFC
          SVLMGAN.A.EVA..KFCETTIG.K....G.L.KEL.QTPNFRI.VV...DTVELCGALKNIVAVGAGFC
Retrocopy SVLMGANTANEVAAGKFCETTIGSKVTENGLLFKELLQTPNFRIMVVDDADTVELCGALKNIVAVGAGFC

Parental  DGLGFGDNTKAAVIRLGLMEMIAFTKLFCSGPVSPATFLESCGVADLITTCYGGRNRKVAEAFARTGKSI
          DGL..GDNTKAAVIRLGLMEMIAFT..FC.G.VS.ATFLESCG.ADLITTCYGGRNRKVAEAFAR.G..I
Retrocopy DGLRWGDNTKAAVIRLGLMEMIAFTRIFCKGQVSMATFLESCGIADLITTCYGGRNRKVAEAFARAGRTI

Parental  EQLEKEMLNGQKLQGPQTARELHGILQRKGLLDKFPLFMAVYKVCYENQPVGEFIRCLQNHPEHL
          E.LE.EMLNGQKLQGPQT..E...IL..KGLLDKFPLF.AVY..CYE..PV.E...CLQ.HPEH.
Retrocopy EELEREMLNGQKLQGPQTSAEVYRILKQKGLLDKFPLFTAVYQICYEGRPVQEMLSCLQSHPEHI

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_1295 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1295 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000020375	1 retrocopy	retro_etel_1326,
Macropus eugenii	ENSMEUG00000015143	1 retrocopy	retro_meug_346,
Ictidomys tridecemlineatus	ENSSTOG00000004948	1 retrocopy	retro_itri_1868,
Tursiops truncatus	ENSTTRG00000001012	1 retrocopy	retro_ttru_1295 ,