RetrogeneDB ID: retro_ttru_794

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_347:26604..27837(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PPAT
• Ensembl ID: ENSTTRG00000010928
• Aliases: None
• Description: phosphoribosyl pyrophosphate amidotransferase [Source:HGNC Symbol;Acc:9238]

Sequence

>retro_ttru_794
GTAAATCACGTCTTTACTGAAGACAATTTGAAGAAATTATATACTTCAAATCTTGGAATTGGACACACGAGGTACGCCAC
TACAGGAAACTGTGAATTAGAAAATTGCCCGCCCTTTGTTGCTGAAACACTTCATGGGAAAATAACTGTGGCGCATAATG
GCGAATTGGTAAATGCTGCTCGCTTAAGGAAAAAGCTTCTGCGTCACGGTATTGGTCTGTCAACAAGTTCTGATAGCGAA
ATGATCACCCAGTTACTGGCGTATACCCCTCCTCAGGAACAAGATGACACCCCAGACTGGGTGGCAAGGATTAAAAACTT
AATGAAGGAAGCACCCACGGCATACTCTCTGACTATAATGCACAGAGATGTGATTTATGCGGTACGAGATCATTACGGAA
ATCGTCCTCTGTGCATTGGTCGTCTTATTCCTGTATCTGATATAAATGACAAAGAAAAAAAAATCTTCAGAAACAGAAGG
ATGGGTGGTGTCTTCAGAATCTTGTAGCTTTTTATCTTTGGTGCAAGATATTACCGTGAAATCTTGCCTGGAGAAATTGT
GGAAATATCCAGACATAATTTCCAAACTCTTGATATTATACCAAGGTCTGAAGGAAACCCAATGGCTTTCTGTATCTTTG
AATATGTTTATTTTGCAAGACCAGATAGTATATTTGAAGACCAAATGGTTTACACAGTAAGATACCGTTGTGGTCTGCAG
CTGGCAATTGAAGCCCCTGTGGATGCGGATTTACTTAGCACTGTCCCGGAATCTGCTACGCCTGCTGCCCTTGGTTACGC
AGCAAAGTGTGGGCTTCTGTATGTGGAGGTGCTATGTAAAAACCGGTATGTAGGAAGAACATTCATTCAGCCAAACATGA
GGTTAAGACAACTTGGTGTTGCGAAAAAATTTGGAGTATTGTCAGACAACTTTAAAGGCAAAAGAATTGTTCTTGTAGAT
GATTCAATTGTGAGAGGCAATACCATTTCACCCATAATCAAATTGCTCAAAGAATCTGGTGCAAAAGAGGTACACATTCG
CGTAGCTTCACCACCAATTAGATATCCATGCTTCATGGGAATAAACATACCAACAAAAGAAGAGCTTATTGCCAATAAAC
CAGAATTTGAGCATATCTCAGATCATCTAGGAGCAAACAGTGCTGTGTATCTGTCAGTAGAAGGACTGGTTTCATCTGTA
CAAGAAGGGATAACATTTAAAAAACAGAAAGTG

Alignment

ORF - retro_ttru_794 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.4 %
• Parental protein coverage: 79.5 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  VNHVFTEDNLKKLYTSNLGIGHTTYATKGNCELENCQPFVVETLHGKIAVAHNGELVNAARLRKKLLRHG
          VNHVFTEDNLKKLYTSNLGIGHT.YAT.GNCELENC.PFV.ETLHGKI.VAHNGELVNAARLRKKLLRHG
Retrocopy VNHVFTEDNLKKLYTSNLGIGHTRYATTGNCELENCPPFVAETLHGKITVAHNGELVNAARLRKKLLRHG

Parental  IGLSTSSDSEMITQLLAYTPPQEQDDTPDWVARIKNLMKEAPTAYSLIIMHRDVIYAVRDPYGNRPLCIG
          IGLSTSSDSEMITQLLAYTPPQEQDDTPDWVARIKNLMKEAPTAYSL.IMHRDVIYAVRD.YGNRPLCIG
Retrocopy IGLSTSSDSEMITQLLAYTPPQEQDDTPDWVARIKNLMKEAPTAYSLTIMHRDVIYAVRDHYGNRPLCIG

Parental  RLIPVSDIND-KEKKSSETEGWVVSSESCSFLSI-GARYYREILPGEIVEISRHNIQTLDIIPRSEGNPM
          RLIPVSDIND.K...SSETEGWVVSSESCSFLS..GARYYREILPGEIVEISRHN.QTLDIIPRSEGNPM
Retrocopy RLIPVSDIND>KXXXSSETEGWVVSSESCSFLSL<GARYYREILPGEIVEISRHNFQTLDIIPRSEGNPM

Parental  AFCIFEYVYFARPDSIFEDQMVYTVRYRCGLQLAIEAPVDADLVSTVPESATPAALGYAAKCELPYVEVL
          AFCIFEYVYFARPDSIFEDQMVYTVRYRCGLQLAIEAPVDADL.STVPESATPAALGYAAKC.L.YVEVL
Retrocopy AFCIFEYVYFARPDSIFEDQMVYTVRYRCGLQLAIEAPVDADLLSTVPESATPAALGYAAKCGLLYVEVL

Parental  CKNRYVGRTFIQPNMRLRQLGVAKKFGVLSDNFKGKRIVLVDDSIVRGNTISPIIKLLKESGAKEVHIRV
          CKNRYVGRTFIQPNMRLRQLGVAKKFGVLSDNFKGKRIVLVDDSIVRGNTISPIIKLLKESGAKEVHIRV
Retrocopy CKNRYVGRTFIQPNMRLRQLGVAKKFGVLSDNFKGKRIVLVDDSIVRGNTISPIIKLLKESGAKEVHIRV

Parental  ASPPIRYPCFMGINIPTKEELIANKPEFEHISDHLGANSVVYLSVEGLVASVQEGITFKKQKV
          ASPPIRYPCFMGINIPTKEELIANKPEFEHISDHLGANS.VYLSVEGLV.SVQEGITFKKQKV
Retrocopy ASPPIRYPCFMGINIPTKEELIANKPEFEHISDHLGANSAVYLSVEGLVSSVQEGITFKKQKV

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_794 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_794 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 8 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Equus caballus	ENSECAG00000023644	2 retrocopies	retro_ecab_1113, retro_ecab_270,
Homo sapiens	ENSG00000128059	1 retrocopy	retro_hsap_2809,
Gorilla gorilla	ENSGGOG00000004608	1 retrocopy	retro_ggor_1953,
Monodelphis domestica	ENSMODG00000020693	1 retrocopy	retro_mdom_1487,
Nomascus leucogenys	ENSNLEG00000008762	1 retrocopy	retro_nleu_431,
Pongo abelii	ENSPPYG00000029568	1 retrocopy	retro_pabe_2306,
Pan troglodytes	ENSPTRG00000016080	1 retrocopy	retro_ptro_1903,
Tursiops truncatus	ENSTTRG00000010928	1 retrocopy	retro_ttru_794 ,