RetrogeneDB ID: retro_ttru_229

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1614:39791..40816(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FAM169A
• Ensembl ID: ENSTTRG00000005228
• Aliases: None
• Description: family with sequence similarity 169, member A [Source:HGNC Symbol;Acc:29138]

Sequence

>retro_ttru_229
GTACTGAATCGAATTATTTACAGAAAGCAGGAAATGGAGAGAAATGAGATCCCATTCCTGGGTCATAGCAGTACTGATTA
TGCTAAGATTCTGTGGAAGAAAGGAGAGGCCACTGGGTTTTATCCAGTTAAGCCTACAGGAAGCACATGTGCCTCGTTTC
TTACCCAAAGCTACCAACTGCCAGTTCTTGATACAATGTTCATAAGAAAGAAATATAGAGGCAAAGACTTTGGGCTTCAT
ATGCTGGAGGACTTGTTGATTCCTTCACAGAAGATGCACTTGGCTTGTGGTATCCACTGACCTCTCTTATGTACACAGCT
TGCAACCAGTACTTTGAAAAATATCCAGGAGACCATGAACTGCTTTGGGAAGTTGAAGGTGTTGGACGCTGGTACCAGAG
AATACCAATCACCAGAGCATTACAAAGAGAAACATGTAAAATGACTGCAGTTTCTCAAAATGAAGCTAAAAGACCTGTGT
CTGGAGAATATGGTCTTGCATCTGTTCCAGACTATGAAGCAGGAGCTGAAGACAGTTTGTCTAGTGAGATGCAGCTAACT
ATTGATTCTCTAAAAGATGCCTTTGCAAGCACTTCTGAAGGTCACGATAAAACACCTGTTTCCACTCGTACTCGAAGTAG
TCATCTAAAGCAGCCAAAGATTGGAAAACGGTTTCAGGATTCTGAATTTAGTAGTTCTCGAGGGGAAGATGAAAAGACTC
CCCAGACTTCACCTACAGCTTCAGTGAACAAATTGGGGTCTACTGCACAAATATCAGAGAGCTCAGAAAAATTCTTGGAA
GAAGAACCCTAACAGACTGTGATTGAATCTGAAGATGAAAGTAGTGATAAAAATGTTCGACCAGCACCAGAAACCCAGCC
AGGCCTGGAAAAGCAAGAAGGTGAAAAGGAATCTGAATTAGAGCCTATGAATGGTGAGATAATGGATGATACTCTTAAGA
CTTCACCTATAACAGAAGAGGAGGACTCCACTAGTGAAGTTTTAAGTGAAGAATTAAAATTGCAG

Alignment

ORF - retro_ttru_229 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.42 %
• Parental protein coverage: 51.04 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VLNRIIYRKQEMERNEIPFLCHSSTDYAKILWKKGEAIGFYSVKPTGSICASFLTQSYQLPVLDTMFVRK
          VLNRIIYRKQEMERNEIPFL.HSSTDYAKILWKKGEA.GFY.VKPTGS.CASFLTQSYQLPVLDTMF.RK
Retrocopy VLNRIIYRKQEMERNEIPFLGHSSTDYAKILWKKGEATGFYPVKPTGSTCASFLTQSYQLPVLDTMFIRK

Parental  KYRGKDFGLHMLEDF-VDSFTEDALGLRYPLTSLMYIACNQYFEKYPGDHELLWEVEGVGHWYQRIPITR
          KYRGKDFGLHMLED..VDSFTEDALGL.YPLTSLMY.ACNQYFEKYPGDHELLWEVEGVG.WYQRIPITR
Retrocopy KYRGKDFGLHMLEDL<VDSFTEDALGLWYPLTSLMYTACNQYFEKYPGDHELLWEVEGVGRWYQRIPITR

Parental  ALQRETFKITAVSQNEAKRPVSGEYGLGSVPDYEAGAEDSLSSEMQLTIDSLKDAFASTSEGHGKTPVST
          ALQRET.K.TAVSQNEAKRPVSGEYGL.SVPDYEAGAEDSLSSEMQLTIDSLKDAFASTSEGH.KTPVST
Retrocopy ALQRETCKMTAVSQNEAKRPVSGEYGLASVPDYEAGAEDSLSSEMQLTIDSLKDAFASTSEGHDKTPVST

Parental  RTRSSHLKRPKIGKRFQDSEFSSSQGEDEKTPQTSPTASVNKLESTARTSESSEEFLEEEPEQSVIEFED
          RTRSSHLK.PKIGKRFQDSEFSSS.GEDEKTPQTSPTASVNKL.STA..SESSE.FLEEEP.Q.VIE.ED
Retrocopy RTRSSHLKQPKIGKRFQDSEFSSSRGEDEKTPQTSPTASVNKLGSTAQISESSEKFLEEEP*QTVIESED

Parental  ESSDKNVRPAPETQPGLEKQEGEKESESEPMNGEIMDDTLKTSLITEEEDSTSEVLGEELKLQ
          ESSDKNVRPAPETQPGLEKQEGEKESE.EPMNGEIMDDTLKTS.ITEEEDSTSEVL.EELKLQ
Retrocopy ESSDKNVRPAPETQPGLEKQEGEKESELEPMNGEIMDDTLKTSPITEEEDSTSEVLSEELKLQ

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_229 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_229 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Tursiops truncatus	ENSTTRG00000005228	1 retrocopy	retro_ttru_229 ,