RetrogeneDB ID: retro_ttru_1210

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_107298:23189..24019(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTTRG00000011805
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: AZIN1
• Ensembl ID: ENSTTRG00000000140
• Aliases: None
• Description: antizyme inhibitor 1 [Source:HGNC Symbol;Acc:16432]

Sequence

>retro_ttru_1210
AAGTTTGGCACTACCCTGAAGAACTGTAGGCATCTTTTGGAATGTGCTAAGGAACTTGATGTCCAAATTATTGGGGTTAA
ATTTCATGTTTCAAGTGCTTGCAAAGAATCTCAAGTATATGTACATGCTCTATCTGATGCTCGATGTGTATTTGATATGG
CTGGAGAATTTGGCTTCGCAATGAACATGTTAGACATTGGGTTCACAGGAACCGAATATCGATTGGAAGAGGTTAATCGT
GTTATCAGCCCTTTGTTGGATGTCTACTTTCCTGAAGGATCTGACACTAAGAGAATTTCTGAACCCGGAAGCTACTACGT
GTCTTCTGCATTTACACTTGCAGTTAATATCATTGCAAAGAAAGTTGTTGAAAATAAGTTTTCCTCTGGAGTAGGAAAAA
CCGGAAGTGATGAACCAACCTTCATGTATTATACGAACGACGGTGTTTATGGTTCTTTTGCAAGTAAACTGTCTGAGGAC
TTAAATACCATTCCAGAGCTTCACAAGAAATACAAGGAAGATGAGCCTCTGTTTACAAGCAGCCTTTGGGGTCCATCCTG
TGAAGAGCTTGATCAAATTGTGGAAAACTGTCTTCTTCCTGAGCTGAATGTGGGAGATTGGCTTATCTTTGATAACATGG
GAGCAGATTCTTTCACAAACCATCTGCTTTTAATGATTTTCAGAGGCCAGCTATTTATTATATGATGTCATATGGTGATT
GGTATGAGATGCAAGATTCTGGAATTACTTCAGACACAATGATGAAGAACTTCTTCTTTGTGCCTTCTTGCATTCAGTTG
AGCCAAGAAGACAGCTTTTCCACTGAAGCT

Alignment

ORF - retro_ttru_1210 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.93 %
• Parental protein coverage: 62.42 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  KFGTTLKNCRHLLECAKELDVQIIGVKFHVSSACKESQVYVHALSDARCVFDMAGEFGFTMNMLDIGGGF
          KFGTTLKNCRHLLECAKELDVQIIGVKFHVSSACKESQVYVHALSDARCVFDMAGEFGF.MNMLDIG..F
Retrocopy KFGTTLKNCRHLLECAKELDVQIIGVKFHVSSACKESQVYVHALSDARCVFDMAGEFGFAMNMLDIG--F

Parental  TGTEFQLEEVNHVISPLLDVYFPEGSGIKIISEPGSYYVSSAFTLAVNIIAKKVVENKFSSGVGKTGSDE
          TGTE..LEEVN.VISPLLDVYFPEGS..K.ISEPGSYYVSSAFTLAVNIIAKKVVENKFSSGVGKTGSDE
Retrocopy TGTEYRLEEVNRVISPLLDVYFPEGSDTKRISEPGSYYVSSAFTLAVNIIAKKVVENKFSSGVGKTGSDE

Parental  PTFMYYMNDGVYGSFASKLSEDLNTIPEVHKKYKEDEPLFTSSLWGPSCDELDQIVENCLLPELNVGDWL
          PTFMYY.NDGVYGSFASKLSEDLNTIPE.HKKYKEDEPLFTSSLWGPSC.ELDQIVENCLLPELNVGDWL
Retrocopy PTFMYYTNDGVYGSFASKLSEDLNTIPELHKKYKEDEPLFTSSLWGPSCEELDQIVENCLLPELNVGDWL

Parental  IFDNMGADS-FHEPSAFNDFQRPAIYYMMSYSDWYEMQDAGITSDTMMKNFFFVPSCIQLSQEDNFSTEA
          IFDNMGADS.FH.PSAFNDFQRPAIYYMMSY.DWYEMQD.GITSDTMMKNFFFVPSCIQLSQED.FSTEA
Retrocopy IFDNMGADS<FHKPSAFNDFQRPAIYYMMSYGDWYEMQDSGITSDTMMKNFFFVPSCIQLSQEDSFSTEA

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_1210 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1210 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 5 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000005164	2 retrocopies	retro_chof_1086, retro_chof_1522,
Equus caballus	ENSECAG00000016922	1 retrocopy	retro_ecab_1096,
Oryctolagus cuniculus	ENSOCUG00000015196	1 retrocopy	retro_ocun_1439,
Tursiops truncatus	ENSTTRG00000000140	1 retrocopy	retro_ttru_1210 ,
Tursiops truncatus	ENSTTRG00000004611	3 retrocopies	retro_ttru_1940, retro_ttru_731, retro_ttru_843,