RetrogeneDB ID: retro_ttru_363

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1990:376619..377154(-)
• Located in intron of: ENSTTRG00000013659

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZDHHC7
• Ensembl ID: ENSTTRG00000016028
• Aliases: None
• Description: zinc finger, DHHC-type containing 7 [Source:HGNC Symbol;Acc:18459]

Sequence

>retro_ttru_363
GAAGTGATCTACAAGTACCCCAAGTGCTGCTGTATCAAGCCTGAGTACACCCACAACTGCAGTATTTGCAAAAGATGTAT
TTGAAAAATGGATCATCCCTGCCATGGCTGAACAATTGTATTGGAGAAAAGAATCAGAGATTTTTTTGTGCTCTTCACTA
TGTACTTCGTGCTGGCGTTCATGCACACACTTGTGCTCTGAGGGCTGCAGTTCATCCCCTGCATCCAAGAGCAGTGGACT
GAATGCAGTGATTGTTCATCTGTAGTCACTGTAATTCTGTTGATCTTCCTGTGCCTTGAGGGTCTGCTGTTTTTCAGTTT
CACTGCAGTGATGTTTGGCACTCAGATCCACTCCGTATGCAATGATGAAACGGAGGTTGAGAGGCTGAAGAGTAAGAAGC
CTGAGTGGGAGCAGAGGCTGCAGTGGGAAGAGATGAAGTCAGTCTTTGGGAGGCTCCCCCTTGCTGCTCTGGATGAACCC
CTTCGTTGGCTTCTGATTCAGGTGACTGCAGATAATACTCAGAAAAAGGGGCCCA

Alignment

ORF - retro_ttru_363 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.8 %
• Parental protein coverage: 51.9 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  EVIYKCPKCCCIKPERAHHCSICKRCIRKMDHHC-PWVNNCVGEKNQRFF-VLFTMYIALASVHALVLCG
          EVIYK.PKCCCIKPE..H.CSICKRCI.KMDH.C.PW.NNC.GEKNQRFF.VLFTMY..LA..H.LVL.G
Retrocopy EVIYKYPKCCCIKPEYTHNCSICKRCI*KMDHPC<PWLNNCIGEKNQRFF>VLFTMYFVLAFMHTLVL*G

Parental  LQFVACVRGQWTECSGFSPPVTVILLIFLCLEGLLFFTFTAVMFGTQIHSICNDETEIERLKSEKPTWER
          LQF..C...QWTECS..S..VTVILLIFLCLEGLLFF.FTAVMFGTQIHS.CNDETE.ERLKS.KP.WE.
Retrocopy LQFIPCIQEQWTECSDCSSVVTVILLIFLCLEGLLFFSFTAVMFGTQIHSVCNDETEVERLKSKKPEWEQ

Parental  RLRWEGMKSVF-GGPPSLLWMNPFVGFRFRRLQTRPRKGGP
          RL.WE.MKSVF.GG.P.LLWMNPFVGF.FR.LQ...RK.GP
Retrocopy RLQWEEMKSVF>GGSPLLLWMNPFVGF*FR*LQIILRKRGP

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_363 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_363 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 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000004119	1 retrocopy	retro_cjac_1437,
Echinops telfairi	ENSETEG00000016077	1 retrocopy	retro_etel_1105,
Microcebus murinus	ENSMICG00000011194	1 retrocopy	retro_mmur_1362,
Macaca mulatta	ENSMMUG00000020674	1 retrocopy	retro_mmul_1448,
Sus scrofa	ENSSSCG00000002667	1 retrocopy	retro_sscr_267,
Tursiops truncatus	ENSTTRG00000016028	1 retrocopy	retro_ttru_363 ,