RetrogeneDB ID: retro_ttru_1156

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_105818:108667..109222(-)
• Located in intron of: ENSTTRG00000001893

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTTRG00000006200
• Aliases: None
• Description: None

Sequence

>retro_ttru_1156
ATCTTCTCCCAGTTTGGCCTTCTGTATTCGGTCCGAGTCTTCCCAGATGCAGCAGTGGCCGGTCCTGGGTTCTATGCCAT
CATCAAGTTTTATTCAGCAAGGGATGCCCACAGAGCCCAAAAGGCATGCGACCAGAAGCAGCTTTTTCAGACATCTCCAG
TGAAGGTTCGTCTCGGCACCAGATATAAGGCGGTTCAACATAATACGCCTGCCCTAAACGGCTCCAGATACCAAGAATTG
GCAAATTACTACTTTGGTTTCAATAGGTGGTCAAAAAGGATCATCAGGCTTCAGGATCTTTCTAACCTTGAAGAAAGGGA
AAAGGAAGATATTGTGACACCACTTCACAAGCAAAGCCTGAAGTTCTTTTGTGCTTTAGAAGCGGTATTGCCCTCCCACG
AGTGCAGGAGTCCCGAAATTGGCATGGCTGAGGAACCTGTGGATAACTTGGAGGAAGGGTCGTTATCATTCCTTATGAAA
AGGAAGCTAACCCAGAAGGTTGCTATTCAGAAGGCTATGAGAGATGCATTCCAGAAACAGCTGATTGTGGTTTTA

Alignment

ORF - retro_ttru_1156 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.73 %
• Parental protein coverage: 83.71 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VFSQFGLLYSVRVFPNAAVAGPGFYGIIKFYSARDAHRAQKACDQKQLFQTSPVKVRLGTSHKAVQHNTP
          .FSQFGLLYSVRVFP.AAVAGPGFY.IIKFYSARDAHRAQKACDQKQLFQTSPVKVRLGT..KAVQHNTP
Retrocopy IFSQFGLLYSVRVFPDAAVAGPGFYAIIKFYSARDAHRAQKACDQKQLFQTSPVKVRLGTRYKAVQHNTP

Parental  ALNSSRCQELANYYFGFNGWSKRIIKLQDLSNLEEREKEDIVTPLQKQSLKFFCALEVVLPSHECRSPGV
          ALN.SR.QELANYYFGFN.WSKRII.LQDLSNLEEREKEDIVTPL.KQSLKFFCALE.VLPSHECRSP..
Retrocopy ALNGSRYQELANYYFGFNRWSKRIIRLQDLSNLEEREKEDIVTPLHKQSLKFFCALEAVLPSHECRSPEI

Parental  GMAEEPLDKLEEGSLSFLMKRKVTQKLAIQKAMTDAFQKLLIVVL
          GMAEEP.D.LEEGSLSFLMKRK.TQK.AIQKAM.DAFQK.LIVVL
Retrocopy GMAEEPVDNLEEGSLSFLMKRKLTQKVAIQKAMRDAFQKQLIVVL

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_1156 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1156 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000000030	1 retrocopy	retro_btau_1640,
Oryctolagus cuniculus	ENSOCUG00000022704	1 retrocopy	retro_ocun_358,
Tursiops truncatus	ENSTTRG00000006200	1 retrocopy	retro_ttru_1156 ,