RetrogeneDB ID: retro_ttru_1836

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_93770:21168..21455(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SEC61G
• Ensembl ID: ENSTTRG00000000593
• Aliases: None
• Description: Sec61 gamma subunit [Source:HGNC Symbol;Acc:18277]

Sequence

>retro_ttru_1836
CAGCTTCCGGTTCTGGTGGGCATTTGTCTGTTGGCTGTTGTGCTACGTGTCTTTGGCTTGTGAGCGGATGGTGGGCAGGC
ATCATGGATCAGGTAATGCAGTTTGTTGAGCCAAGTTGGCAGTTTGTGAAGGACTCAATTCGGCTGGTTAAAAGATTCGC
CAAACCTGATAGAAAAGAATTCCAGAAGATTGCCATGGCAACAGCAATAGTATTTGCTATAATGGGATTCACTGGCTTTT
TTGTGAAATTGATCCATATTCCTATTAATAACATCATTGTTGGTGGC

Alignment

ORF - retro_ttru_1836 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.47 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  QFPVPVGLCVSAVVLRV-LDLASGRRA--MDQVMQFVEPSRQFVKDSIRLVKRCTKPDRKEFQKIAMATA
          Q.PV.VG.C..AVVLRV.L.L.SG..A..MDQVMQFVEPS.QFVKDSIRLVKR..KPDRKEFQKIAMATA
Retrocopy QLPVLVGICLLAVVLRV<LWLVSGWWAGIMDQVMQFVEPSWQFVKDSIRLVKRFAKPDRKEFQKIAMATA

Parental  IGFAIMGFIGFFVKLIHIPINNIIVGG
          I.FAIMGF.GFFVKLIHIPINNIIVGG
Retrocopy IVFAIMGFTGFFVKLIHIPINNIIVGG

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_1836 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1836 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.

---

Parental genes homology:

Parental genes homology involve 3 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Mus musculus	ENSMUSG00000078974	13 retrocopies	retro_mmus_1214, retro_mmus_1309, retro_mmus_1382, retro_mmus_1970, retro_mmus_2055, retro_mmus_2109, retro_mmus_3042, retro_mmus_3263, retro_mmus_3349, retro_mmus_3484, retro_mmus_447, retro_mmus_538, retro_mmus_586,
Tarsius syrichta	ENSTSYG00000014302	1 retrocopy	retro_tsyr_1084,
Tursiops truncatus	ENSTTRG00000000593	1 retrocopy	retro_ttru_1836 ,