RetrogeneDB ID: retro_ttru_139

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_135:15970..16759(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ESRRB
• Ensembl ID: ENSTTRG00000001302
• Aliases: None
• Description: estrogen-related receptor beta [Source:HGNC Symbol;Acc:3473]

Sequence

>retro_ttru_139
ATATCCGCAGACGACCGGCACCTGGTCTCCAGCTGCGGCTCCTTCATCAAGACCGAGCCGTCTAGCCCGTCCTCGGGCAT
CGATGCCCTCAGTCACCACAGCCCCAGCGGCTCGTCCGACGCCAGCGGCGGCTTCGGCCTGGCCCTGGGCGCCCACGCCA
ACAGTCTGGACTTGCTGCCCATGTTCGTGGGCACCGGGCTGGGAGGCACCCCCTACCGCAAGGGCTACGAGGACTGTGCC
GGCGGCATCATGGAGGACTCGGCCATCAAGTGCCAGTACATGCTCAACGCCATCCCCAAGAGCCTGTGCCTCGTGTGTGG
GGACATCGCCTCCGGCTACCACTACAGCGTGGCCTCCTGTGAGGCCTGCAAGGCTTTCTTCAAGAGGACCATCCAAGGGA
ACATTGAGTACAGCTGCCCGGCCACCAACGAGTGTGAGATCACGAAACGGAGGCGCGAGTCCTGCCAGGCCTGTCGCTTC
ATGAAATGCCTCAAAGTGGGGATAATGCTGAAGGAAGGTGTGCGCCTTGACCGAGTGCGTGGAGGCCGCCAGAAATACAA
GCGCCGGCTGGACTCAGAGAGCAGCCCGTACCTGAGCTTACAGATTTCTCCTCCTGCTAAAAAGCCATTGACTAAAATCG
CCTCCTACCTGCTAGTGGCTGAGCCGGACAAACTCTACGCCATGCCACCCCCTGGCATGCCAGAGGGTGACATCAAGGCT
CTGACCACTCTCTGTGATCTGGCAGACAGGGAGCTCATGGTCATTATTGGCTGGGCCAAGCACATCCCA

Alignment

ORF - retro_ttru_139 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.68 %
• Parental protein coverage: 52.51 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSADDRHLVSSCGSFIKTEPSSPSSGIDALSHHSPSGSSDASGGFGLALGAHANGLDSPPMFAGAGLGGT
          .SADDRHLVSSCGSFIKTEPSSPSSGIDALSHHSPSGSSDASGGFGLALGAHAN.LD..PMF.G.GLGGT
Retrocopy ISADDRHLVSSCGSFIKTEPSSPSSGIDALSHHSPSGSSDASGGFGLALGAHANSLDLLPMFVGTGLGGT

Parental  PCRKGYEDCAGGIMEDSAIKCEYMLNAIPKRLCLVCGDIASGYHYGVASCEACKAFFKRTIQGNIEYSCP
          P.RKGYEDCAGGIMEDSAIKC.YMLNAIPK.LCLVCGDIASGYHY.VASCEACKAFFKRTIQGNIEYSCP
Retrocopy PYRKGYEDCAGGIMEDSAIKCQYMLNAIPKSLCLVCGDIASGYHYSVASCEACKAFFKRTIQGNIEYSCP

Parental  ATNECEITKRRRKSCQACRFMKCLKVG-MLKEGVRLDRVRGGRQKYKRRLDSESSPYLSLQISPPAKKPL
          ATNECEITKRRR.SCQACRFMKCLKVG.MLKEGVRLDRVRGGRQKYKRRLDSESSPYLSLQISPPAKKPL
Retrocopy ATNECEITKRRRESCQACRFMKCLKVGIMLKEGVRLDRVRGGRQKYKRRLDSESSPYLSLQISPPAKKPL

Parental  TKIVSYLLVAEPDKLYAMPPPGMPEGDIKALTTLCDLADRELVVIIGWAKHIP
          TKI.SYLLVAEPDKLYAMPPPGMPEGDIKALTTLCDLADREL.VIIGWAKHIP
Retrocopy TKIASYLLVAEPDKLYAMPPPGMPEGDIKALTTLCDLADRELMVIIGWAKHIP

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_139 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_139 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000020709	1 retrocopy	retro_cjac_3190,
Mus musculus	ENSMUSG00000021255	1 retrocopy	retro_mmus_3461,
Rattus norvegicus	ENSRNOG00000010259	1 retrocopy	retro_rnor_2876,
Tursiops truncatus	ENSTTRG00000001302	1 retrocopy	retro_ttru_139 ,