RetrogeneDB ID: retro_ttru_685

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_3074:228793..229735(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ORC4
• Ensembl ID: ENSTTRG00000016400
• Aliases: None
• Description: origin recognition complex, subunit 4 [Source:HGNC Symbol;Acc:8490]

Sequence

>retro_ttru_685
CTAGTTGGAGATAAAGTTTTTGGAAGCTTTGCTGAAAACCTTTCATTTCTTCTGGAAGCTTTAAGAAAAGGTGACTGGAC
TAGTAGTTGCCCAGAGATCTTCATGTTAGATGAATTTGATCTTTTTGCTCATCATAAAAACCAAACGCTCCTCTATAATC
TTTTTGACATTTCTCAGTTTGCACAGACTGCAGTAGCAGTTATTGGTCTTACACGTAGATTGCATATTTTGGAACTCTTA
GAAAAAAGAGTGAAGTCACGATTTTTCCACTGGCAGATACACTTAATGAATTCATTTGGTTTTCCACAGTATCTTAAAAT
ATTTAGAGAACAATTATCTCTATCTGCAGTATTTCCAGACAAGATTTTCGCTGAGAAGTGGAATGAGAAGGTTCAGAGTC
TCTCAGAAGATAGAAGTGTGCAAGAAGTGCTGCAGAAGCATTTCAATGTCAGCAAAAACCTGTGGTCATTACACATGCTA
CTGAGGCTTGCTTTAAATCGCGTAACACCATCACAACCATTTATGACTGCAGCAGATCTGATGGAGGCAAACCAGCTGTG
TAGCGTGGACTCTAAAGCAAATATTGTACGTGGTCTGTCGGTCTTGGAAATCTGTCTTATCATAGCAATGAAACATTTAA
ATGACATCTATGAAGAGGAGCCCTTTAATTTTAAAATGGTTTATAATGAGTTTCAGAAGTTTGTTCAAAGGAGGGCCCAT
TCTGTTTATAATTTTGAGAAACCTGTTGTCATGAAGGCTTTTGAACACTTACAACAATTAGAATTAATAAGGCCCCTGAA
AAGAACATCAGTAAATGCACAGAGGGAGTACCGGCTGATGAAACTACTTCTGGATAACACACAAATTATGAATGCTTTGC
AGAAATACCCTAACTGTCCTACATATGTTAGGCAGTGGGCAACATCCTCCTTAAACTGGTTA

Alignment

ORF - retro_ttru_685 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.49 %
• Parental protein coverage: 72.02 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VVGDKVFGSFAENLSFLLEALKKGDRTSSCPVIFILDEFDLFAHHKNQTLLYNLFDISQSAQTPVAIIGL
          .VGDKVFGSFAENLSFLLEAL.KGD.TSSCP.IF.LDEFDLFAHHKNQTLLYNLFDISQ.AQT.VA.IGL
Retrocopy LVGDKVFGSFAENLSFLLEALRKGDWTSSCPEIFMLDEFDLFAHHKNQTLLYNLFDISQFAQTAVAVIGL

Parental  TCRLDILELLEKRVKSRFSHRQIHLMNSFGFPQYLKIFKEQLSLPAVFPGKIFAEKWNENVQSLSEDRNV
          T.RL.ILELLEKRVKSRF.H.QIHLMNSFGFPQYLKIF.EQLSL.AVFP.KIFAEKWNE.VQSLSEDR.V
Retrocopy TRRLHILELLEKRVKSRFFHWQIHLMNSFGFPQYLKIFREQLSLSAVFPDKIFAEKWNEKVQSLSEDRSV

Parental  RDVLQKHFNVSKSLRSLHTLLMLALNRVTPSHPFMTAADLMEANQLCSMDSKANIVHGLSVLEICLIIAM
          ..VLQKHFNVSK.L.SLH.LL.LALNRVTPS.PFMTAADLMEANQLCS.DSKANIV.GLSVLEICLIIAM
Retrocopy QEVLQKHFNVSKNLWSLHMLLRLALNRVTPSQPFMTAADLMEANQLCSVDSKANIVRGLSVLEICLIIAM

Parental  KHLNDIYEEEPFNFQMVYNEFQKFVQRKAHSVYNFEKPVVMKAFEHLQQLELIRPMERTSVNAQREYQLM
          KHLNDIYEEEPFNF.MVYNEFQKFVQR.AHSVYNFEKPVVMKAFEHLQQLELIRP..RTSVNAQREY.LM
Retrocopy KHLNDIYEEEPFNFKMVYNEFQKFVQRRAHSVYNFEKPVVMKAFEHLQQLELIRPLKRTSVNAQREYRLM

Parental  KLLLDNTQIMNALQKYPNCPTDVRQWATSSLSWL
          KLLLDNTQIMNALQKYPNCPT.VRQWATSSL.WL
Retrocopy KLLLDNTQIMNALQKYPNCPTYVRQWATSSLNWL

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_685 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_685 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000000877	1 retrocopy	retro_etel_1742,
Tursiops truncatus	ENSTTRG00000016400	1 retrocopy	retro_ttru_685 ,