RetrogeneDB ID: retro_ttru_1573

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_15294:694..1647(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MAT2B
• Ensembl ID: ENSTTRG00000001154
• Aliases: None
• Description: methionine adenosyltransferase II, beta [Source:HGNC Symbol;Acc:6905]

Sequence

>retro_ttru_1573
GGGCGGGAGACGGAGCTCTGTAACCACCTTGTCCCCGTGAACTGCCCTTTGGTGGAGGAGGAAGTTAGCAGCCCCAACTG
GCGGGTTCCGATTACTGGTGCCACCAGGCTTCTTGGCAGAGCTAAGAATTTAGCAGAATTTCAGCAGAATAATCGGCATG
CCGTCGGCTGTGGTTTTAGAAGAGCAAGACCAAAATCTGAGCAGCTTAATCTCTTGGAGTCTGAAGCAGTTCATCACATC
ACTTATGACTTTCAGCCCCGTGTCCTAGTGCATTGTGCAGCAGAGAGAGGCCAGATGTTGTCGAAAATCAGCCGGATGCT
GCTTCGCAACCTGACGTCGATGCTTCTGGGAACTCGGTGAAGAATGCAGCTGCGGTCGGAGCATTTCTAATCTACATTAG
CTCCGATGATGTTTTTGCTGGAACAAGCCCACCTTAGAGAGAGGAAGACGTACCAAGTCCCCTGAATCTTTATGGCAGAA
CGAAACTAGAGGAGAAAGGGCCATCCTGGAGAACAACCTAGGAGCTGCTGTTCTGAGAATTCCTGTCCTGTACGGAGAAG
TCAAAAAGCTTGAGGAAAGTGCCGTGACCGTTATGTTTGATAAAGTGCAGTTCAGCAACAAGTCTGCGAACAGCGACCAC
CGGCAGCAGCGGTTCCCCACACACGTCAAAGATGTGGCACTGTGTGCGTCAGTTATCACAGAAGAGGATGCTGGATCCAT
CAGTTAACGGAACCTTTCACTGGTCCGGCAATGAACAGATGACTAAGTACGAAATGGCACGTGCAACTGCACACGCCTTC
AAGCTCCCCAGCAGCCACTTGAGACTGAAAACTGACAGTCCTGTCTTAGGAGCACAACGACGTCTGAGAAACGCTCAGCC
TGACTCCTCCAAATTGGAGGCCTTAGGCATTGGCCAGTGAACACCATTTCGAATTGGAATCAAAGAATCACTC

Alignment

ORF - retro_ttru_1573 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.73 %
• Parental protein coverage: 94.91 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  GREKELSIHFVPGNCRLVEEEVNIPNRRVLITGATGLLGRAV-YKEFQQNNWHAVGCGFRRARPKFEQVN
          GRE.EL..H.VP.NC.LVEEEV..PN.RV.ITGAT.LLGRA....EFQQNN.HAVGCGFRRARPK.EQ.N
Retrocopy GRETELCNHLVPVNCPLVEEEVSSPNWRVPITGATRLLGRAKNLAEFQQNNRHAVGCGFRRARPKSEQLN

Parental  LLDSNAVHHIIYDFQPHVIVHCAAER-RPDVVENQPDAASQLNVDASGNLAKEAAAVGAFLIYISSDYVF
          LL.S.AVHHI.YDFQP.V.VHCAAER.RPDVVENQPDAASQ..VDASGN..K.AAAVGAFLIYISSD.VF
Retrocopy LLESEAVHHITYDFQPRVLVHCAAER<RPDVVENQPDAASQPDVDASGNSVKNAAAVGAFLIYISSDDVF

Parental  DGTNPPYREEDIPSPLNLYGKTKLE-GERAVLENNLGAAVLRIPVLYGEVEKLEESAVTVMFDKVQFSNK
          .GT.PP.REED.PSPLNLYG.TKLE.GERA.LENNLGAAVLRIPVLYGEV.KLEESAVTVMFDKVQFSNK
Retrocopy AGTSPP*REEDVPSPLNLYGRTKLE<GERAILENNLGAAVLRIPVLYGEVKKLEESAVTVMFDKVQFSNK

Parental  SANMDHWQQRFPTHVKDVA-TVC-RQLAEKRMLDPSIKGTFHWSGNEQMTKYEMACAIADTFNLPSSHLR
          SAN.DH.QQRFPTHVKDVA.TVC.RQL..KRMLDPS..GTFHWSGNEQMTKYEMA.A.A..F.LPSSHLR
Retrocopy SANSDHRQQRFPTHVKDVA<TVC<RQLSQKRMLDPSVNGTFHWSGNEQMTKYEMARATAHAFKLPSSHLR

Parental  PITDSPVLGAQRP-RNAQLDCSKLETLGIGQRTPFRIGIKESL
          ..TDSPVLGAQR..RNAQ.D.SKLE.LGIGQ.TPFRIGIKESL
Retrocopy LKTDSPVLGAQRRLRNAQPDSSKLEALGIGQ*TPFRIGIKESL

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_1573 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1573 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 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000012350	1 retrocopy	retro_btau_387,
Callithrix jacchus	ENSCJAG00000015401	1 retrocopy	retro_cjac_1749,
Macaca mulatta	ENSMMUG00000013980	1 retrocopy	retro_mmul_2019,
Ictidomys tridecemlineatus	ENSSTOG00000009459	1 retrocopy	retro_itri_1696,
Tursiops truncatus	ENSTTRG00000001154	1 retrocopy	retro_ttru_1573 ,