RetrogeneDB ID: retro_cint_35

Retrocopy location

• Organism: Vase tunicate (Ciona intestinalis)
• Coordinates: HT001064.1:1063..1282(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSCING00000023163
• Aliases: None
• Description: None

Sequence

>retro_cint_35
CAGATTCAACTTGAATTGGTGCAACAAAAATTGTGTGGTCGTGACGTCATATACTTAGCTGGTTGTCTTGGCAATATATC
TCGGTTGGAAATGTCGCACACCGTTATTTTAAAAGAACATTGCAGTGTCCTGAAACAAGCGATACAACAACTTCCATCCA
TCCAGGTTCATCAACTTTATCCAGATATTTTATCAACTTATCCCAATGTTACACGAAAC

Alignment

ORF - retro_cint_35 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52. %
• Parental protein coverage: 52.08 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KIQLRLSNQRLNDDDVKYLAGCLGNISLFDMWETYISSDQCRVLKQAIQQLPSSRISIWKMQPVILWSGL
          .IQL.L..Q.L...DV.YLAGCLGNIS...M..T.I....C.VLKQAIQQLPS..I......P.IL....
Retrocopy QIQLELVQQKLCGRDVIYLAGCLGNISRLEMSHTVILKEHCSVLKQAIQQLPS--IQVHQLYPDILSTYP

Parental  NNTKD
          N.T..
Retrocopy NVTRN

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Ciona intestinalis was not studied using RNA-Seq expression data.

ChIP-Seq

Ciona intestinalis was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_cint_35 retrocopy.

TSS

Ciona intestinalis was not studied using FANTOM5 data.

Lab

retro_cint_35 was not experimentally validated.

Homology

Retrocopy orthology:

Ciona intestinalis 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.

---

Parental genes homology:

Parental genes homology involve 1 parental gene, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Ciona intestinalis	ENSCING00000023163	2 retrocopies	retro_cint_32, retro_cint_35 ,