RetrogeneDB ID: retro_ttru_411

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_2174:9714..10701(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ASNS
• Ensembl ID: ENSTTRG00000003498
• Aliases: None
• Description: asparagine synthetase (glutamine-hydrolyzing) [Source:HGNC Symbol;Acc:753]

Sequence

>retro_ttru_411
ATGTGTGGCATTTGGGCCCTCTTTGGCAGCGACGACTGCCTTTCTGTTCAGTGTCTGAGTGCTATGAAGATTGCACACAG
AGGTCTAGATGCATTTCTTTTTGAGAATGTCAGTGGATACACCAACTGCTGCTTTGGATTTCACCGGTTTGTGGTGGTTG
ACCAGCTGTTTGGAATGCAGCCAATTTGAGTGAAGTAATATCTTACTTGTGGCTCTGTTACAACAGTGAAATCTACAACC
ACAAGGAGCTGCAACACCATTTTGAATTTGAATACCAGACCAAAGTGGATGGTGAGATAATCTTTCATCTTTATGACAAA
TGAGGAATTGAGCAAACAGTTTGTATGTCGGATGGGGTATTTGCATTTATTTTACTGGATACTGTCAATAAGAAAGTGTT
CTTGGGCAGAGATACCTATGGAGTCAGACCTTTGTTTAAAGCCGGGACAGAAGATGGACTTTTGGCCATGTGTTCAGAAG
CTAAAGGTCTCATTACCTTGAAGCACTCTATGACTCCTTTTAAAAAAGTGGAGCTTTTTCTCCCAGGACACTATGAAGTT
TTGGATTTAAAGCCAAATGGCAAAGTAGCATCAGTGGAAATGGTTAAATATCATCGCTGTAGAGATGAGCCTCTGCATGC
CCTGTGTGACAGCGTGGAGAAACTCTTCCCAGGTTTTGAGATAGAAACTGTGAAGAACAACCTACGAATCCTTTTTGACA
ATGCCATTAAGAAACGTTTGATAATGGACAGAAGGATTGGCTGCCTTTTATCAGGTGGCTTGGTTTCCAGTTTGGTTGCT
GCCATCCTGTTGAAGCAGCTAAAAGAGGCCCAAGTACAGTATCCTCTCCAGACATTTGCGATTGGCATGGAAGACAGTCC
CGATTTACTAGCTGCTAGAAAGGTGGCAAATCATTGCGAGCGAACACCATGAAGTCCTCTTTAACTCTGAGGAAGGCATT
CAGGTCCTGGATGAAGTCCTATTTTCC

Alignment

ORF - retro_ttru_411 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.65 %
• Parental protein coverage: 58.82 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MCGIWALFGSDDCLSVQCLSAMKIAHRGPDAFRFENVNGYTNCCFGFHRLAVVDQLFGMQPIRVKKY-PY
          MCGIWALFGSDDCLSVQCLSAMKIAHRG.DAF.FENV.GYTNCCFGFHR..VVDQLFGMQPI.VK.Y..Y
Retrocopy MCGIWALFGSDDCLSVQCLSAMKIAHRGLDAFLFENVSGYTNCCFGFHRFVVVDQLFGMQPI*VK*Y<SY

Parental  LWLCYNGEIYNHKKLQHHFEFEYQTKVDGEIILHLYDKGGIEQTVCMLDGVFAFILLDTANKKVFLGRDT
          LWLCYN.EIYNHK.LQHHFEFEYQTKVDGEII.HLYDK.GIEQTVCM.DGVFAFILLDT.NKKVFLGRDT
Retrocopy LWLCYNSEIYNHKELQHHFEFEYQTKVDGEIIFHLYDK*GIEQTVCMSDGVFAFILLDTVNKKVFLGRDT

Parental  YGVRPLFKAVTEDGFLAVCSEAKGLINLKHSMTPFLKVEPFLPGHYEVLDLKPNGKVASVEMVKYHNCRD
          YGVRPLFKA.TEDG.LA.CSEAKGLI.LKHSMTPF.KVE.FLPGHYEVLDLKPNGKVASVEMVKYH.CRD
Retrocopy YGVRPLFKAGTEDGLLAMCSEAKGLITLKHSMTPFKKVELFLPGHYEVLDLKPNGKVASVEMVKYHRCRD

Parental  EPLHALYDSVEKLFPGFEIETVKNNLRILFDNAIKKRLMTDRRIGCLLSGGLDSSLVAAILLKQLKEAKV
          EPLHAL.DSVEKLFPGFEIETVKNNLRILFDNAIKKRL..DRRIGCLLSGGL.SSLVAAILLKQLKEA.V
Retrocopy EPLHALCDSVEKLFPGFEIETVKNNLRILFDNAIKKRLIMDRRIGCLLSGGLVSSLVAAILLKQLKEAQV

Parental  QYPLQTFAIGMEDSPDLLAARKVANH-IGSEHHEVLFNSEEGIQVLDEVIFS
          QYPLQTFAIGMEDSPDLLAARKVANH.....H.......E.GIQVLDEV.FS
Retrocopy QYPLQTFAIGMEDSPDLLAARKVANH>ASEHHEVLFNSEE-GIQVLDEVLFS

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_411 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_411 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
Echinops telfairi	ENSETEG00000014303	1 retrocopy	retro_etel_928,
Loxodonta africana	ENSLAFG00000000909	1 retrocopy	retro_lafr_130,
Tursiops truncatus	ENSTTRG00000003498	1 retrocopy	retro_ttru_411 ,