RetrogeneDB ID: retro_ttru_329

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1877:212253..212957(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SEPT7
• Ensembl ID: ENSTTRG00000016197
• Aliases: None
• Description: septin 7 [Source:HGNC Symbol;Acc:1717]

Sequence

>retro_ttru_329
CTCACACCAGAGAAGTGTCAACAGTTTAGAAAACAGATGATGAAAGAAACCCAAAACTATAAAATTAAAATACGTGAATT
TCCAGAAACAGATGATGACGAAAAATAAAAACTTGTTAAAAACATGGAGGACCGTTTCCCTCTTGTGGAAGGTAGCAGTA
CTGTCATCAAGGTTAATGGCAAAAGGGTCAGAGGAAGGCGGTATCTTTGGGGTATTGCTGAAGTTAAAAGTGGTGAACAT
TGGAATTTGACAATTCTAAGAAATATGTTGCTAAGAACACACATGCAGGACTTGAAAGGTGTCATTGGTAACGTGCGCAA
TGAGAACTACAGAAGCAGAAAACCTGCAGCTGTGACTTACGCTGGAGTTGATAACAAAAAGAACAAAAGGCAGCTTCCTA
AGAGCCCCCGGCACAAATGGAAGAAGAAAGAAGGGAGCGTGTAGCTGAGATGACGTTGGAGATGGAGCAGGTGTTGGAGA
TGAAGGCCAAAGAAAAAGTTCAAAAGCTGAAGGACTCTGAAGCTGAGCTCCAGCAGCGCCATGAGCAAATGAAAAAGAAT
TTGGAAGCGCTGCCCAAAGAATTGGAGGAAAAATGTCATCAATTTGAAGATGAGAAATCAAACTGGAAAAACTCAACAGT
GTACTTTAGAACAACCAAACTCTGAGAACCATGGAAAAAAATGAGAAGAAAGGGAAGGTCTTTT

Alignment

ORF - retro_ttru_329 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.25 %
• Parental protein coverage: 57.59 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  LTPEECQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDRLPLAVVGSNTIIEVNGKRVRGRQYP
          LTPE.CQQF.KQ.MKE.Q..KIKI.EFPETDD.E..KLVK...DR.PL.V.GS.T.I.VNGKRVRGR.Y.
Retrocopy LTPEKCQQFRKQMMKETQNYKIKIREFPETDDDEK*KLVKNMEDRFPL-VEGSSTVIKVNGKRVRGRRYL

Parental  WGVAEVENGEHCDFTILRNMLIRTHMQDLKDVTNNVHYENYRSRKLAAVTYNGVDNNKNKGQLTKSPL-A
          WG.AEV..GEH...TILRNML.RTHMQDLK.V..NV..ENYRSRK.AAVTY.GVDN.KNK.QL.KSP..A
Retrocopy WGIAEVKSGEHWNLTILRNMLLRTHMQDLKGVIGNVRNENYRSRKPAAVTYAGVDNKKNKRQLPKSPR<A

Parental  QMEEERREHVAKMKKMEMEMEQVFEMKVKEKVQKLKDSEAELQRRHEQMKKNLEAQHKELEEKRRQFEDE
          QMEEERRE.VA.M.....EMEQV.EMK.KEKVQKLKDSEAELQ.RHEQMKKNLEA..KELEEK..QFEDE
Retrocopy QMEEERRERVAEM---TLEMEQVLEMKAKEKVQKLKDSEAELQQRHEQMKKNLEALPKELEEKCHQFEDE

Parental  KANW-EAQQRILEQQNSS-RTLEKNKKKGKIF
          K.NW...QQ..LEQ.NS......K...KG..F
Retrocopy KSNW>KTQQCTLEQPNSE<EPWKKMRRKGRSF

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_329 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_329 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 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000012276	2 retrocopies	retro_cjac_1259, retro_cjac_3809,
Equus caballus	ENSECAG00000022693	1 retrocopy	retro_ecab_650,
Monodelphis domestica	ENSMODG00000021167	1 retrocopy	retro_mdom_1672,
Pongo abelii	ENSPPYG00000017639	1 retrocopy	retro_pabe_3438,
Sarcophilus harrisii	ENSSHAG00000003788	1 retrocopy	retro_shar_258,
Tursiops truncatus	ENSTTRG00000016197	1 retrocopy	retro_ttru_329 ,